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1534 lines
229 KiB
Plaintext
1534 lines
229 KiB
Plaintext
# -------------------------------------------------------------------------------------------------------------------------------
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# For editing this EUCAST reference file, these values can all be used for targeting antibiotics:
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# aminoglycosides, aminopenicillins, antifungals, antimycobacterials, betalactams, betalactams_with_inhibitor, carbapenems, cephalosporins, cephalosporins_1st, cephalosporins_2nd, cephalosporins_3rd, cephalosporins_4th, cephalosporins_5th, cephalosporins_except_CAZ, fluoroquinolones, glycopeptides, glycopeptides_except_lipo, lincosamides, lipoglycopeptides, macrolides, oxazolidinones, penicillins, polymyxins, quinolones, streptogramins, tetracyclines, tetracyclines_except_TGC, trimethoprims, ureidopenicillins
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# and all separate EARS-Net letter codes such as AMC. They can be separated by comma: 'AMC, fluoroquinolones'.
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# The 'if_mo_property' column can be any column name from the AMR::microorganisms data set, or 'genus_species' or 'gramstain'. If 'this_value' exists in AMR::microorganisms.groups$mo_group_name it will be expanded in eucast_rules() to all relevant species occuring in microorganisms.groups$mo_name before further processing of the line in this file.
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# The like.is.one_of column must be 'like' or 'is' or 'one_of' ('like' will read the 'this_value' column as regular expression)
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# The EUCAST guideline contains references to the 'Burkholderia cepacia complex'. All species in this group are noted on the 'B.cepacia' sheet of the EUCAST Clinical Breakpoint v.10.0 Excel file of 2020 and later
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# >>>>> IF YOU WANT TO IMPORT THIS FILE INTO YOUR OWN SOFTWARE, HAVE THE FIRST 9 LINES SKIPPED <<<<<
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# -------------------------------------------------------------------------------------------------------------------------------
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reference.rule_group reference.version reference.rule if_mo_property like.is.one_of this_value and_these_antibiotics have_these_values then_change_these_antibiotics to_value note
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Breakpoints 10 Aerococcus sanguinicola genus_species is Aerococcus sanguinicola NOR S fluoroquinolones S
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Breakpoints 10 Aerococcus sanguinicola genus_species is Aerococcus sanguinicola NOR I fluoroquinolones I
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Breakpoints 10 Aerococcus sanguinicola genus_species is Aerococcus sanguinicola NOR R fluoroquinolones R
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Breakpoints 10 Aerococcus sanguinicola genus_species is Aerococcus sanguinicola CIP S LVX S
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Breakpoints 10 Aerococcus sanguinicola genus_species is Aerococcus sanguinicola CIP I LVX I
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Breakpoints 10 Aerococcus urinae genus_species is Aerococcus sanguinicola CIP R LVX R
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Breakpoints 10 Aerococcus urinae genus_species is Aerococcus urinae NOR S fluoroquinolones S
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Breakpoints 10 Aerococcus urinae genus_species is Aerococcus urinae NOR I fluoroquinolones I
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Breakpoints 10 Aerococcus urinae genus_species is Aerococcus urinae NOR R fluoroquinolones R
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Breakpoints 10 Aerococcus urinae genus_species is Aerococcus urinae CIP S LVX S
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Breakpoints 10 Aerococcus urinae genus_species is Aerococcus urinae CIP I LVX I
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Breakpoints 10 Aerococcus urinae genus_species is Aerococcus urinae CIP R LVX R
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Breakpoints 10 Anaerobic Gram-negatives genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella PEN S AMP, AMX, PIP, TZP, TIC S
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Breakpoints 10 Anaerobic Gram-negatives genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella PEN I AMP, AMX, PIP, TZP, TIC I
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Breakpoints 10 Anaerobic Gram-negatives genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella PEN R AMP, AMX, PIP, TZP, TIC R
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Breakpoints 10 Anaerobic Gram-positives genus one_of Actinomyces, Bifidobacterium, Clostridium, Clostridioides, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus, Propionibacterium PEN S AMP, AMX, PIP, TZP, TIC S
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Breakpoints 10 Anaerobic Gram-positives genus one_of Actinomyces, Bifidobacterium, Clostridium, Clostridioides, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus, Propionibacterium PEN I AMP, AMX, PIP, TZP, TIC I
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Breakpoints 10 Anaerobic Gram-positives genus one_of Actinomyces, Bifidobacterium, Clostridium, Clostridioides, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus, Propionibacterium PEN R AMP, AMX, PIP, TZP, TIC R
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Breakpoints 10 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY S DOX S
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Breakpoints 10 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY I DOX I
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Breakpoints 10 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY R DOX R
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Breakpoints 10 Campylobacter coli genus_species is Campylobacter coli ERY S AZM, CLR S
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Breakpoints 10 Campylobacter coli genus_species is Campylobacter coli ERY I AZM, CLR I
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Breakpoints 10 Campylobacter coli genus_species is Campylobacter coli ERY R AZM, CLR R
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Breakpoints 10 Campylobacter coli genus_species is Campylobacter coli TCY S DOX S
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Breakpoints 10 Campylobacter coli genus_species is Campylobacter coli TCY I DOX I
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Breakpoints 10 Campylobacter coli genus_species is Campylobacter coli TCY R DOX R
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Breakpoints 10 Campylobacter jejuni genus_species is Campylobacter jejuni ERY S AZM, CLR S
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Breakpoints 10 Campylobacter jejuni genus_species is Campylobacter jejuni ERY I AZM, CLR I
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Breakpoints 10 Campylobacter jejuni genus_species is Campylobacter jejuni ERY R AZM, CLR R
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Breakpoints 10 Campylobacter jejuni genus_species is Campylobacter jejuni TCY S DOX S
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Breakpoints 10 Campylobacter jejuni genus_species is Campylobacter jejuni TCY I DOX I
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Breakpoints 10 Campylobacter jejuni genus_species is Campylobacter jejuni TCY R DOX R
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Breakpoints 10 Enterobacterales (Order) order is Enterobacterales AMP S AMX S
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Breakpoints 10 Enterobacterales (Order) order is Enterobacterales AMP I AMX I
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Breakpoints 10 Enterobacterales (Order) order is Enterobacterales AMP R AMX R
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Breakpoints 10 Enterococcus genus is Enterococcus AMP S AMX, AMC, PIP, TZP S
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Breakpoints 10 Enterococcus genus is Enterococcus AMP I AMX, AMC, PIP, TZP I
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Breakpoints 10 Enterococcus genus is Enterococcus AMP R AMX, AMC, PIP, TZP R
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Breakpoints 10 Enterococcus genus is Enterococcus NOR S CIP, LVX S
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Breakpoints 10 Enterococcus genus is Enterococcus NOR I CIP, LVX I
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Breakpoints 10 Enterococcus genus is Enterococcus NOR R CIP, LVX R
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Breakpoints 10 Haemophilus influenzae genus_species is Haemophilus influenzae AMP S AMX, PIP S
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Breakpoints 10 Haemophilus influenzae genus_species is Haemophilus influenzae AMP I AMX, PIP I
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Breakpoints 10 Haemophilus influenzae genus_species is Haemophilus influenzae AMP R AMX, PIP R
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Breakpoints 10 Haemophilus influenzae genus_species is Haemophilus influenzae PEN S AMP, AMX, AMC, PIP, TZP S
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Breakpoints 10 Haemophilus influenzae genus_species is Haemophilus influenzae AMC S TZP S
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Breakpoints 10 Haemophilus influenzae genus_species is Haemophilus influenzae AMC I TZP I
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Breakpoints 10 Haemophilus influenzae genus_species is Haemophilus influenzae AMC R TZP R
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Breakpoints 10 Haemophilus influenzae genus_species is Haemophilus influenzae NAL S CIP, LVX, MFX, OFX S
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Breakpoints 10 Haemophilus influenzae genus_species is Haemophilus influenzae TCY S DOX, MNO S
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Breakpoints 10 Kingella kingae genus_species is Kingella kingae PEN S AMP, AMX S
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Breakpoints 10 Kingella kingae genus_species is Kingella kingae PEN I AMP, AMX I
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Breakpoints 10 Kingella kingae genus_species is Kingella kingae PEN R AMP, AMX R
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Breakpoints 10 Kingella kingae genus_species is Kingella kingae ERY S AZM, CLR S
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Breakpoints 10 Kingella kingae genus_species is Kingella kingae ERY I AZM, CLR I
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Breakpoints 10 Kingella kingae genus_species is Kingella kingae ERY R AZM, CLR R
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Breakpoints 10 Kingella kingae genus_species is Kingella kingae TCY S DOX S
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Breakpoints 10 Kingella kingae genus_species is Kingella kingae TCY I DOX I
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Breakpoints 10 Kingella kingae genus_species is Kingella kingae TCY R DOX R
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Breakpoints 10 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC S TZP S
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Breakpoints 10 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC I TZP I
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Breakpoints 10 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC R TZP R
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Breakpoints 10 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL S CIP, LVX, MFX, OFX S
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Breakpoints 10 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY S AZM, CLR, RXT S
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Breakpoints 10 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY I AZM, CLR, RXT I
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Breakpoints 10 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY R AZM, CLR, RXT R
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Breakpoints 10 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY S DOX, MNO S
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Breakpoints 10 Pasteurella multocida genus_species is Pasteurella multocida PEN S AMP, AMX S
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Breakpoints 10 Pasteurella multocida genus_species is Pasteurella multocida PEN I AMP, AMX I
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Breakpoints 10 Pasteurella multocida genus_species is Pasteurella multocida PEN R AMP, AMX R
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Breakpoints 10 Staphylococcus genus is Staphylococcus PEN, FOX S betalactams_with_inhibitor S
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Breakpoints 10 Staphylococcus genus is Staphylococcus PEN, FOX R, S OXA, FLC S
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Breakpoints 10 Staphylococcus genus is Staphylococcus FOX R betalactams R
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Breakpoints 10 Staphylococcus genus_species is Staphylococcus saprophyticus AMP S AMX, AMC, PIP, TZP S
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Breakpoints 10 Staphylococcus genus is Staphylococcus FOX S carbapenems, cephalosporins_except_CAZ S
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Breakpoints 10 Staphylococcus genus is Staphylococcus FOX I carbapenems, cephalosporins_except_CAZ I
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Breakpoints 10 Staphylococcus genus is Staphylococcus FOX R carbapenems, cephalosporins_except_CAZ R
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Breakpoints 10 Staphylococcus genus is Staphylococcus NOR S CIP, LVX, MFX, OFX S
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Breakpoints 10 Staphylococcus genus is Staphylococcus ERY S AZM, CLR, RXT S
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Breakpoints 10 Staphylococcus genus is Staphylococcus ERY I AZM, CLR, RXT I
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Breakpoints 10 Staphylococcus genus is Staphylococcus ERY R AZM, CLR, RXT R
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Breakpoints 10 Staphylococcus genus is Staphylococcus TCY S DOX, MNO S
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Breakpoints 10 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S aminopenicillins, ureidopenicillins, cephalosporins_except_CAZ, carbapenems, FLC, AMC S
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Breakpoints 10 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I aminopenicillins, ureidopenicillins, cephalosporins_except_CAZ, carbapenems, FLC, AMC I
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Breakpoints 10 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R aminopenicillins, ureidopenicillins, cephalosporins_except_CAZ, carbapenems, FLC, AMC R
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Breakpoints 10 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR S MFX S
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Breakpoints 10 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR S LVX I
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Breakpoints 10 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY S AZM, CLR, RXT S
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Breakpoints 10 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY I AZM, CLR, RXT I
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Breakpoints 10 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY R AZM, CLR, RXT R
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Breakpoints 10 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY S DOX, MNO S
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Breakpoints 10 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S AMP, AMX, AMC, PIP, TZP S
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Breakpoints 10 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP S AMX, AMC, PIP, TZP S
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Breakpoints 10 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP I AMX, AMC, PIP, TZP I
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Breakpoints 10 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP R AMX, AMC, PIP, TZP R
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Breakpoints 10 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR S MFX S
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Breakpoints 10 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR S LVX I
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Breakpoints 10 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY S AZM, CLR, RXT S
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Breakpoints 10 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY I AZM, CLR, RXT I
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Breakpoints 10 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY R AZM, CLR, RXT R
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Breakpoints 10 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY S DOX, MNO S
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Breakpoints 10 Viridans group streptococci genus_species like ^Streptococcus (anginosus|australis|bovis|constellatus|cristatus|equinus|gallolyticus|gordonii|infantarius|infantis|intermedius|mitis|mutans|oligofermentans|oralis|parasanguinis|peroris|pseudopneumoniae|salivarius|sanguinis|sinensis|sobrinus|thermophilus|vestibularis|viridans)$ PEN S AMP, AMX, AMC, PIP, TZP S
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Breakpoints 10 Viridans group streptococci genus_species like ^Streptococcus (anginosus|australis|bovis|constellatus|cristatus|equinus|gallolyticus|gordonii|infantarius|infantis|intermedius|mitis|mutans|oligofermentans|oralis|parasanguinis|peroris|pseudopneumoniae|salivarius|sanguinis|sinensis|sobrinus|thermophilus|vestibularis|viridans)$ AMP S AMX, AMC, PIP, TZP S
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Breakpoints 10 Viridans group streptococci genus_species like ^Streptococcus (anginosus|australis|bovis|constellatus|cristatus|equinus|gallolyticus|gordonii|infantarius|infantis|intermedius|mitis|mutans|oligofermentans|oralis|parasanguinis|peroris|pseudopneumoniae|salivarius|sanguinis|sinensis|sobrinus|thermophilus|vestibularis|viridans)$ AMP I AMX, AMC, PIP, TZP I
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Breakpoints 10 Viridans group streptococci genus_species like ^Streptococcus (anginosus|australis|bovis|constellatus|cristatus|equinus|gallolyticus|gordonii|infantarius|infantis|intermedius|mitis|mutans|oligofermentans|oralis|parasanguinis|peroris|pseudopneumoniae|salivarius|sanguinis|sinensis|sobrinus|thermophilus|vestibularis|viridans)$ AMP R AMX, AMC, PIP, TZP R
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Breakpoints 11 Aerococcus sanguinicola genus_species is Aerococcus sanguinicola NOR S fluoroquinolones S
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Breakpoints 11 Aerococcus sanguinicola genus_species is Aerococcus sanguinicola NOR I fluoroquinolones I
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Breakpoints 11 Aerococcus sanguinicola genus_species is Aerococcus sanguinicola NOR R fluoroquinolones R
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Breakpoints 11 Aerococcus sanguinicola genus_species is Aerococcus sanguinicola CIP S LVX S
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Breakpoints 11 Aerococcus sanguinicola genus_species is Aerococcus sanguinicola CIP I LVX I
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Breakpoints 11 Aerococcus urinae genus_species is Aerococcus sanguinicola CIP R LVX R
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Breakpoints 11 Aerococcus urinae genus_species is Aerococcus urinae NOR S fluoroquinolones S
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Breakpoints 11 Aerococcus urinae genus_species is Aerococcus urinae NOR I fluoroquinolones I
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Breakpoints 11 Aerococcus urinae genus_species is Aerococcus urinae NOR R fluoroquinolones R
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Breakpoints 11 Aerococcus urinae genus_species is Aerococcus urinae CIP S LVX S
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Breakpoints 11 Aerococcus urinae genus_species is Aerococcus urinae CIP I LVX I
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Breakpoints 11 Aerococcus urinae genus_species is Aerococcus urinae CIP R LVX R
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Breakpoints 11 Anaerobic Gram-negatives genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella PEN S AMP, AMX, PIP, TIC S
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Breakpoints 11 Anaerobic Gram-negatives genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella PEN I AMP, AMX, PIP, TIC I
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Breakpoints 11 Anaerobic Gram-negatives genus one_of Bacteroides, Bilophila , Fusobacterium, Mobiluncus, Porphyromonas, Prevotella PEN R AMP, AMX, PIP, TIC R
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Breakpoints 11 Anaerobic Gram-positives genus one_of Actinomyces, Bifidobacterium, Clostridium, Clostridioides, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus, Propionibacterium PEN S AMP, AMX, PIP, TIC S
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Breakpoints 11 Anaerobic Gram-positives genus one_of Actinomyces, Bifidobacterium, Clostridium, Clostridioides, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus, Propionibacterium PEN I AMP, AMX, PIP, TIC I
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Breakpoints 11 Anaerobic Gram-positives genus one_of Actinomyces, Bifidobacterium, Clostridium, Clostridioides, Cutibacterium, Eggerthella, Eubacterium, Lactobacillus, Propionibacterium PEN R AMP, AMX, PIP, TIC R
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Breakpoints 11 Bacillus genus is Bacillus NOR S fluoroquinolones S added in 11
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Breakpoints 11 Bacillus genus is Bacillus NOR I fluoroquinolones I added in 11
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Breakpoints 11 Bacillus genus is Bacillus NOR R fluoroquinolones R added in 11
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Breakpoints 11 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY S DOX S
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Breakpoints 11 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY I DOX I
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Breakpoints 11 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY R DOX R
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Breakpoints 11 Campylobacter coli genus_species is Campylobacter coli ERY S AZM, CLR S
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Breakpoints 11 Campylobacter coli genus_species is Campylobacter coli ERY I AZM, CLR I
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Breakpoints 11 Campylobacter coli genus_species is Campylobacter coli ERY R AZM, CLR R
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Breakpoints 11 Campylobacter coli genus_species is Campylobacter coli TCY S DOX S
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Breakpoints 11 Campylobacter coli genus_species is Campylobacter coli TCY I DOX I
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Breakpoints 11 Campylobacter coli genus_species is Campylobacter coli TCY R DOX R
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Breakpoints 11 Campylobacter jejuni genus_species is Campylobacter jejuni ERY S AZM, CLR S
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Breakpoints 11 Campylobacter jejuni genus_species is Campylobacter jejuni ERY I AZM, CLR I
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Breakpoints 11 Campylobacter jejuni genus_species is Campylobacter jejuni ERY R AZM, CLR R
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Breakpoints 11 Campylobacter jejuni genus_species is Campylobacter jejuni TCY S DOX S
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Breakpoints 11 Campylobacter jejuni genus_species is Campylobacter jejuni TCY I DOX I
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Breakpoints 11 Campylobacter jejuni genus_species is Campylobacter jejuni TCY R DOX R
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Breakpoints 11 Enterobacterales (Order) order is Enterobacterales AMP S AMX S
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Breakpoints 11 Enterobacterales (Order) order is Enterobacterales AMP I AMX I
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Breakpoints 11 Enterobacterales (Order) order is Enterobacterales AMP R AMX R
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Breakpoints 11 Enterococcus genus is Enterococcus AMP S AMX, AMC, PIP, TZP S
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Breakpoints 11 Enterococcus genus is Enterococcus AMP I AMX, AMC, PIP, TZP I
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Breakpoints 11 Enterococcus genus is Enterococcus AMP R AMX, AMC, PIP, TZP R
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Breakpoints 11 Enterococcus genus is Enterococcus NOR S CIP, LVX S
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Breakpoints 11 Enterococcus genus is Enterococcus NOR I CIP, LVX I
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Breakpoints 11 Enterococcus genus is Enterococcus NOR R CIP, LVX R
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Breakpoints 11 Haemophilus influenzae genus_species is Haemophilus influenzae AMP S AMX, PIP S
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Breakpoints 11 Haemophilus influenzae genus_species is Haemophilus influenzae AMP I AMX, PIP I
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Breakpoints 11 Haemophilus influenzae genus_species is Haemophilus influenzae AMP R AMX, PIP R
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Breakpoints 11 Haemophilus influenzae genus_species is Haemophilus influenzae PEN S AMP, AMX, AMC, PIP, TZP S
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Breakpoints 11 Haemophilus influenzae genus_species is Haemophilus influenzae AMC S TZP S
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Breakpoints 11 Haemophilus influenzae genus_species is Haemophilus influenzae AMC I TZP I
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Breakpoints 11 Haemophilus influenzae genus_species is Haemophilus influenzae AMC R TZP R
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Breakpoints 11 Haemophilus influenzae genus_species is Haemophilus influenzae NAL S CIP, LVX, MFX, OFX S
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Breakpoints 11 Haemophilus influenzae genus_species is Haemophilus influenzae TCY S DOX, MNO S
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Breakpoints 11 Kingella kingae genus_species is Kingella kingae PEN S AMP, AMX S
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Breakpoints 11 Kingella kingae genus_species is Kingella kingae PEN I AMP, AMX I
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Breakpoints 11 Kingella kingae genus_species is Kingella kingae PEN R AMP, AMX R
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Breakpoints 11 Kingella kingae genus_species is Kingella kingae ERY S AZM, CLR S
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Breakpoints 11 Kingella kingae genus_species is Kingella kingae ERY I AZM, CLR I
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Breakpoints 11 Kingella kingae genus_species is Kingella kingae ERY R AZM, CLR R
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Breakpoints 11 Kingella kingae genus_species is Kingella kingae TCY S DOX S
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Breakpoints 11 Kingella kingae genus_species is Kingella kingae TCY I DOX I
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Breakpoints 11 Kingella kingae genus_species is Kingella kingae TCY R DOX R
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Breakpoints 11 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC S TZP S
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Breakpoints 11 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC I TZP I
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Breakpoints 11 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC R TZP R
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Breakpoints 11 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL S CIP, LVX, MFX, OFX S
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Breakpoints 11 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY S AZM, CLR, RXT S
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Breakpoints 11 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY I AZM, CLR, RXT I
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Breakpoints 11 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY R AZM, CLR, RXT R
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Breakpoints 11 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY S DOX, MNO S
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Breakpoints 11 Pasteurella multocida genus_species is Pasteurella multocida PEN S AMP, AMX S
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Breakpoints 11 Pasteurella multocida genus_species is Pasteurella multocida PEN I AMP, AMX I
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Breakpoints 11 Pasteurella multocida genus_species is Pasteurella multocida PEN R AMP, AMX R
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Breakpoints 11 Staphylococcus genus is Staphylococcus PEN, FOX S betalactams_with_inhibitor S
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Breakpoints 11 Staphylococcus genus is Staphylococcus PEN, FOX R, S OXA, FLC S
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Breakpoints 11 Staphylococcus genus is Staphylococcus FOX R betalactams R
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Breakpoints 11 Staphylococcus genus_species is Staphylococcus saprophyticus AMP S AMX, AMC, PIP, TZP S
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Breakpoints 11 Staphylococcus genus is Staphylococcus FOX S carbapenems, cephalosporins_except_CAZ S
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Breakpoints 11 Staphylococcus genus is Staphylococcus FOX I carbapenems, cephalosporins_except_CAZ I
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Breakpoints 11 Staphylococcus genus is Staphylococcus FOX R carbapenems, cephalosporins_except_CAZ R
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Breakpoints 11 Staphylococcus genus is Staphylococcus NOR S CIP, LVX, MFX, OFX S
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Breakpoints 11 Staphylococcus genus is Staphylococcus ERY S AZM, CLR, RXT S
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Breakpoints 11 Staphylococcus genus is Staphylococcus ERY I AZM, CLR, RXT I
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Breakpoints 11 Staphylococcus genus is Staphylococcus ERY R AZM, CLR, RXT R
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Breakpoints 11 Staphylococcus genus is Staphylococcus TCY S DOX, MNO S
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Breakpoints 11 Staphylococcus genus_species is Staphylococcus aureus FOX-S S CTX, CRO I
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Breakpoints 11 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S aminopenicillins, ureidopenicillins, cephalosporins_except_CAZ, carbapenems, FLC, AMC S
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Breakpoints 11 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I aminopenicillins, ureidopenicillins, cephalosporins_except_CAZ, carbapenems, FLC, AMC I
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Breakpoints 11 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R aminopenicillins, ureidopenicillins, cephalosporins_except_CAZ, carbapenems, FLC, AMC R
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Breakpoints 11 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR S MFX S
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Breakpoints 11 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR S LVX I
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Breakpoints 11 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY S AZM, CLR, RXT S
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Breakpoints 11 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY I AZM, CLR, RXT I
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Breakpoints 11 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY R AZM, CLR, RXT R
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Breakpoints 11 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY S DOX, MNO S
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Breakpoints 11 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S AMP, AMX, AMC, PIP, TZP S
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Breakpoints 11 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP S AMX, AMC, PIP, TZP S
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Breakpoints 11 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP I AMX, AMC, PIP, TZP I
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Breakpoints 11 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP R AMX, AMC, PIP, TZP R
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Breakpoints 11 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR S MFX S
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Breakpoints 11 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR S LVX I
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Breakpoints 11 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY S AZM, CLR, RXT S
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Breakpoints 11 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY I AZM, CLR, RXT I
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Breakpoints 11 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY R AZM, CLR, RXT R
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Breakpoints 11 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY S DOX, MNO S
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Breakpoints 11 Viridans group streptococci genus_species like ^Streptococcus (anginosus|australis|bovis|constellatus|cristatus|equinus|gallolyticus|gordonii|infantarius|infantis|intermedius|mitis|mutans|oligofermentans|oralis|parasanguinis|peroris|pseudopneumoniae|salivarius|sanguinis|sinensis|sobrinus|thermophilus|vestibularis|viridans)$ PEN S AMP, AMX, AMC, PIP, TZP S
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Breakpoints 11 Viridans group streptococci genus_species like ^Streptococcus (anginosus|australis|bovis|constellatus|cristatus|equinus|gallolyticus|gordonii|infantarius|infantis|intermedius|mitis|mutans|oligofermentans|oralis|parasanguinis|peroris|pseudopneumoniae|salivarius|sanguinis|sinensis|sobrinus|thermophilus|vestibularis|viridans)$ AMP S AMX, AMC, PIP, TZP S
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Breakpoints 11 Viridans group streptococci genus_species like ^Streptococcus (anginosus|australis|bovis|constellatus|cristatus|equinus|gallolyticus|gordonii|infantarius|infantis|intermedius|mitis|mutans|oligofermentans|oralis|parasanguinis|peroris|pseudopneumoniae|salivarius|sanguinis|sinensis|sobrinus|thermophilus|vestibularis|viridans)$ AMP I AMX, AMC, PIP, TZP I
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Breakpoints 11 Viridans group streptococci genus_species like ^Streptococcus (anginosus|australis|bovis|constellatus|cristatus|equinus|gallolyticus|gordonii|infantarius|infantis|intermedius|mitis|mutans|oligofermentans|oralis|parasanguinis|peroris|pseudopneumoniae|salivarius|sanguinis|sinensis|sobrinus|thermophilus|vestibularis|viridans)$ AMP R AMX, AMC, PIP, TZP R
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Breakpoints 12 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP S AMX S
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Breakpoints 12 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP I AMX I
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Breakpoints 12 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP R AMX R
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Breakpoints 12 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP S LVX S
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Breakpoints 12 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP I LVX I
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Breakpoints 12 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP R LVX R
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Breakpoints 12 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S S fluoroquinolones S
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Breakpoints 12 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S I fluoroquinolones I
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Breakpoints 12 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S R fluoroquinolones R
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Breakpoints 12 Bacillus genus is Bacillus NOR-S S CIP, LVX I
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Breakpoints 12 Bacillus genus is Bacillus NOR-S R CIP, LVX R
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Breakpoints 12 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY-S S DOX I
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Breakpoints 12 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY-S R DOX R
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Breakpoints 12 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY S AZM, CLR S
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Breakpoints 12 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY I AZM, CLR I
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Breakpoints 12 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY R AZM, CLR R
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Breakpoints 12 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY S DOX S
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Breakpoints 12 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY I DOX I
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Breakpoints 12 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY R DOX R
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Breakpoints 12 Enterobacterales (Order) order is Enterobacterales AMP S AMX S
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Breakpoints 12 Enterobacterales (Order) order is Enterobacterales AMP I AMX I
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Breakpoints 12 Enterobacterales (Order) order is Enterobacterales AMP R AMX R
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Breakpoints 12 Enterobacterales (Order) order is Enterobacterales LEX S CZO I
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Breakpoints 12 Enterobacterales (Order) order is Enterobacterales CFR S CZO I
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Breakpoints 12 Enterobacterales (Order) genus is Salmonella PEF-S S CIP S
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Breakpoints 12 Enterobacterales (Order) genus is Salmonella PEF-S I CIP I
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Breakpoints 12 Enterobacterales (Order) genus is Salmonella PEF-S R CIP R
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Breakpoints 12 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY S DOX S
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Breakpoints 12 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY I DOX I
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Breakpoints 12 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY R DOX R
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Breakpoints 12 Enterococcus genus is Enterococcus AMP S AMP, SAM, AMX, AMC, PIP, TZP S
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Breakpoints 12 Enterococcus genus is Enterococcus AMP I AMP, SAM, AMX, AMC, PIP, TZP I
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Breakpoints 12 Enterococcus genus is Enterococcus AMP R AMP, SAM, AMX, AMC, PIP, TZP R
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Breakpoints 12 Enterococcus genus is Enterococcus NOR-S S CIP, LVX S
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Breakpoints 12 Enterococcus genus is Enterococcus NOR-S I CIP, LVX I
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Breakpoints 12 Enterococcus genus is Enterococcus NOR-S R CIP, LVX R
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Breakpoints 12 Haemophilus influenzae genus_species is Haemophilus influenzae PEN-S S AMC, AMP, AMX, CFM, CPD, CPT, CRO, CTB, CTX, CXM, CZT, DOR, ETP, FEP, IMR, IPM, MEM, MEV, PEN, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("H. influenzae"))]), "IMR", "MEV"); sort(x[x %in% betalactams()])
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Breakpoints 12 Haemophilus influenzae genus_species is Haemophilus influenzae PEN-S, BLA-S R, R AMP, AMX, PIP R
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Breakpoints 12 Haemophilus influenzae genus_species is Haemophilus influenzae AMC S SAM S
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Breakpoints 12 Haemophilus influenzae genus_species is Haemophilus influenzae AMC I SAM I
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Breakpoints 12 Haemophilus influenzae genus_species is Haemophilus influenzae AMC R SAM R
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Breakpoints 12 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S S CIP, LVX, MFX, OFX S
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Breakpoints 12 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S I CIP, LVX, MFX, OFX I
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Breakpoints 12 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S R CIP, LVX, MFX, OFX R
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Breakpoints 12 Haemophilus influenzae genus_species is Haemophilus influenzae TCY S DOX, MNO S
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Breakpoints 12 Haemophilus influenzae genus_species is Haemophilus influenzae TCY R DOX, MNO R
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Breakpoints 12 Kingella kingae genus_species is Kingella kingae BLA-S R PEN, AMP, AMX R
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Breakpoints 12 Kingella kingae genus_species is Kingella kingae PEN S AMP, AMX S
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Breakpoints 12 Kingella kingae genus_species is Kingella kingae PEN I AMP, AMX I
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Breakpoints 12 Kingella kingae genus_species is Kingella kingae PEN R AMP, AMX R
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Breakpoints 12 Kingella kingae genus_species is Kingella kingae ERY S AZM, CLR S
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Breakpoints 12 Kingella kingae genus_species is Kingella kingae ERY I AZM, CLR I
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Breakpoints 12 Kingella kingae genus_species is Kingella kingae ERY R AZM, CLR R
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Breakpoints 12 Kingella kingae genus_species is Kingella kingae TCY S DOX S
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Breakpoints 12 Kingella kingae genus_species is Kingella kingae TCY R DOX R
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Breakpoints 12 Moraxella catarrhalis genus_species is Moraxella catarrhalis BLA-S R AMP, AMX, APL, APX, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CLO, CRB, CRN, DIC, EPC, FLC, HET, LEN, MEC, MET, MEZ, MTM, NAF, OXA, PEN, PHE, PHN, PIP, PME, PNM, PRB, PRC, PRP, PVM, SBC, SLT6, SRX, TAL, TEM, TIC R penicillins()[!penicillins() %in% betalactams_with_inhibitor()]
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Breakpoints 12 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC S TZP S
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Breakpoints 12 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC I TZP I
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Breakpoints 12 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC R TZP R
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Breakpoints 12 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL-S S CIP, LVX, MFX, OFX S
|
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Breakpoints 12 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL-S R CIP, LVX, MFX, OFX R
|
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Breakpoints 12 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY S AZM, CLR, RXT S
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Breakpoints 12 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY R AZM, CLR, RXT R
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Breakpoints 12 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY S DOX, MNO S
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Breakpoints 12 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY R DOX, MNO R
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Breakpoints 12 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S R AMP, AMX R
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Breakpoints 12 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, S AMP, AMX S
|
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Breakpoints 12 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, I AMP, AMX I
|
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Breakpoints 12 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, R AMP, AMX R
|
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Breakpoints 12 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S S MNO S
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Breakpoints 12 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S I MNO I
|
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Breakpoints 12 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S R MNO R
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Breakpoints 12 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S S DOX S
|
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Breakpoints 12 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S I DOX I
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Breakpoints 12 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S R DOX R
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Breakpoints 12 Pasteurella multocida genus_species is Pasteurella multocida PEN S AMP, AMX S
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Breakpoints 12 Pasteurella multocida genus_species is Pasteurella multocida PEN I AMP, AMX I
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Breakpoints 12 Pasteurella multocida genus_species is Pasteurella multocida PEN R AMP, AMX R
|
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Breakpoints 12 Pasteurella multocida genus_species is Pasteurella multocida NAL-S S CIP, LVX S
|
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Breakpoints 12 Pasteurella multocida genus_species is Pasteurella multocida NAL-S R CIP, LVX R
|
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Breakpoints 12 Staphylococcus genus_species is Staphylococcus aureus FOX-S R penicillins R See last sentence: Isolates that test resistant to cefoxitin are resistant to all penicillins
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Breakpoints 12 Staphylococcus genus_species is Staphylococcus aureus PEN, FOX-S S, S penicillins S
|
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Breakpoints 12 Staphylococcus genus_species is Staphylococcus aureus PEN, FOX-S R, S betalactams_with_inhibitor, isoxazolylpenicillins, NAF S
|
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Breakpoints 12 Staphylococcus genus is Staphylococcus FOX-S R PEN, PHN, AMP, AMX, PIP, TIC R
|
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Breakpoints 12 Staphylococcus genus_species is Staphylococcus saprophyticus AMP S AMP, SAM, AMX, AMC, PIP, TZP S
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Breakpoints 12 Staphylococcus genus is Staphylococcus FOX-S S BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP S sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 12 Staphylococcus genus is Staphylococcus FOX-S I BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP I sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 12 Staphylococcus genus is Staphylococcus FOX-S R BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP R sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 12 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R PEN, PHN, AMP, AMX, PIP, TIC R
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Breakpoints 12 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S S BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP S sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 12 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S I BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP I sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 12 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP R sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 12 Staphylococcus genus_species is Staphylococcus aureus FOX-S S CPT S
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Breakpoints 12 Staphylococcus genus_species is Staphylococcus aureus FOX-S S BPR S
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Breakpoints 12 Staphylococcus genus is Staphylococcus FOX-S S carbapenems S
|
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Breakpoints 12 Staphylococcus genus is Staphylococcus FOX-S I carbapenems I
|
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Breakpoints 12 Staphylococcus genus is Staphylococcus FOX-S R carbapenems R
|
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Breakpoints 12 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S S carbapenems S Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 12 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S I carbapenems I Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 12 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R carbapenems R Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 12 Staphylococcus genus is Staphylococcus NOR-S S MFX S
|
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Breakpoints 12 Staphylococcus genus is Staphylococcus NOR-S S CIP, LVX I
|
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Breakpoints 12 Staphylococcus genus_species is Staphylococcus aureus VAN S DAL, ORI S
|
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Breakpoints 12 Staphylococcus genus_species is Staphylococcus aureus FOX-S, VAN R, S TLV S MRSA isolates are in this file safely denoted as FOX resistant
|
|
Breakpoints 12 Staphylococcus genus is Staphylococcus ERY S AZM, CLR, RXT S
|
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Breakpoints 12 Staphylococcus genus is Staphylococcus TCY-S S DOX, MNO S
|
|
Breakpoints 12 Staphylococcus genus_species is Staphylococcus aureus FOX-S S CTX, CRO I
|
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN S penicillins S
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN I penicillins I
|
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN R penicillins R
|
|
Breakpoints 12 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN S AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP S penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN I AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP I penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN R AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP R penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S cephalosporins S
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I cephalosporins I
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R cephalosporins R
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S carbapenems S
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I carbapenems I
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R carbapenems R
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S S MFX S does not explicitly state that it is for other fluoroquinolones
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S S LVX I does not explicitly state that it is for other fluoroquinolones
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S R MFX, LVX R does not explicitly state that it is for other fluoroquinolones
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G VAN S DAL, ORI S
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY S AZM, CLR, RXT S
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY R AZM, CLR, RXT R
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY-S S DOX, MNO S
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Breakpoints 12 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY-S R DOX, MNO R
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PHN, PIP, SAM, TZP S x <- unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("S. pneumoniae") & clinical_breakpoints$ab != as.ab("cefaclor"))]); sort(c(x[x %in% betalactams()], "SAM", "PIP", "TZP", "PHN", "IMR", "MEV"))
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PHN, PIP, SAM, TZP S x <- unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("S. pneumoniae") & clinical_breakpoints$ab != as.ab("cefaclor"))]); sort(c(x[x %in% betalactams()], "SAM", "PIP", "TZP", "PHN", "IMR", "MEV"))
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S S CEC I
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S CEC I
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S R PEN, PHN R from flowchart: when OXA < 20 or PEN > 0.06
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN R PHN R from flowchart: when OXA < 20 or PEN > 0.06
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP S AMX, AMC, SAM, PIP, TZP S
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP I AMX, AMC, SAM, PIP, TZP I
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP R AMX, AMC, SAM, PIP, TZP R
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S S MFX S does not explicitly state that it is for other fluoroquinolones
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S S LVX I does not explicitly state that it is for other fluoroquinolones
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S R MFX, LVX R does not explicitly state that it is for other fluoroquinolones
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY S AZM, CLR, RXT S
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY R AZM, CLR, RXT R
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY-S S DOX, MNO S
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Breakpoints 12 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY-S R DOX, MNO R
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Breakpoints 12 Vibrio spp. genus is Vibrio PEF-S S CIP, LVX S
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Breakpoints 12 Vibrio spp. genus is Vibrio PEF-S I CIP, LVX I
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Breakpoints 12 Vibrio spp. genus is Vibrio PEF-S R CIP, LVX R
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Breakpoints 12 Vibrio spp. genus is Vibrio ERY S AZM S
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Breakpoints 12 Vibrio spp. genus is Vibrio ERY I AZM I
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Breakpoints 12 Vibrio spp. genus is Vibrio ERY R AZM R
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Breakpoints 12 Vibrio spp. genus is Vibrio TCY-S S DOX S
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Breakpoints 12 Vibrio spp. genus is Vibrio TCY-S I DOX I
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Breakpoints 12 Vibrio spp. genus is Vibrio TCY-S R DOX R
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Breakpoints 12 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN-S S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PIP, SAM, TZP S paste("Streptococcus", mo_species(microorganisms.groups$mo[which(microorganisms.groups$mo_group == "B_STRPT_VIRI")]), collapse = ", ")
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Breakpoints 12 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN-S R AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PIP, SAM, TZP R paste("Streptococcus", mo_species(microorganisms.groups$mo[which(microorganisms.groups$mo_group == "B_STRPT_VIRI")]), collapse = ", ")
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Breakpoints 12 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP S AMX, AMC, SAM, PIP, TZP S paste("Streptococcus", mo_species(microorganisms.groups$mo[which(microorganisms.groups$mo_group == "B_STRPT_VIRI")]), collapse = ", ")
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Breakpoints 12 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP I AMX, AMC, SAM, PIP, TZP I paste("Streptococcus", mo_species(microorganisms.groups$mo[which(microorganisms.groups$mo_group == "B_STRPT_VIRI")]), collapse = ", ")
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Breakpoints 12 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP R AMX, AMC, SAM, PIP, TZP R paste("Streptococcus", mo_species(microorganisms.groups$mo[which(microorganisms.groups$mo_group == "B_STRPT_VIRI")]), collapse = ", ")
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Breakpoints 13 Staphylococcus genus_species is Staphylococcus aureus FOX-S S CTX, CRO I
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Breakpoints 14 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP S AMX S
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Breakpoints 14 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP I AMX I
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Breakpoints 14 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP R AMX R
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Breakpoints 14 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP S LVX S
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Breakpoints 14 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP I LVX I
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Breakpoints 14 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP R LVX R
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Breakpoints 14 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S S fluoroquinolones S
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Breakpoints 14 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S I fluoroquinolones I
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Breakpoints 14 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S R fluoroquinolones R
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Breakpoints 14 Anaerobic bacteria genus is Prevotella PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & mo_genus(clinical_breakpoints$mo) == "Prevotella")]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 14 Anaerobic bacteria genus is Prevotella AMP S AMX S
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Breakpoints 14 Anaerobic bacteria genus is Prevotella AMP I AMX I
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Breakpoints 14 Anaerobic bacteria genus is Prevotella AMP R AMX R
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Breakpoints 14 Anaerobic bacteria genus_species is Fusobacterium necrophorum PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & clinical_breakpoints$mo == as.mo("Fusobacterium necrophorum"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 14 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP S AMX S
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Breakpoints 14 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP I AMX I
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Breakpoints 14 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP R AMX R
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Breakpoints 14 Anaerobic bacteria genus_species is Clostridium perfringens PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & clinical_breakpoints$mo == as.mo("Fusobacterium necrophorum"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 14 Anaerobic bacteria genus_species is Clostridium perfringens AMP S AMX S
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Breakpoints 14 Anaerobic bacteria genus_species is Clostridium perfringens AMP I AMX I
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Breakpoints 14 Anaerobic bacteria genus_species is Clostridium perfringens AMP R AMX R
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Breakpoints 14 Anaerobic bacteria genus_species is Cutibacterium acnes PEN S AMC, AMP, AMX, CRO, CTX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & clinical_breakpoints$mo == as.mo("Cutibacterium acnes"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM", "TZP", "CTX", "CRO"); sort(x[x %in% betalactams()])
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Breakpoints 14 Anaerobic bacteria genus_species is Cutibacterium acnes AMP S AMX S
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Breakpoints 14 Anaerobic bacteria genus_species is Cutibacterium acnes AMP I AMX I
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Breakpoints 14 Anaerobic bacteria genus_species is Cutibacterium acnes AMP R AMX R
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Breakpoints 14 Anaerobic bacteria genus_species is Cutibacterium acnes CTX S CRO S
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Breakpoints 14 Anaerobic bacteria genus_species is Cutibacterium acnes CTX I CRO I
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Breakpoints 14 Anaerobic bacteria genus_species is Cutibacterium acnes CTX R CRO R
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Breakpoints 14 Bacillus genus is Bacillus NOR-S S CIP, LVX I
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Breakpoints 14 Bacillus genus is Bacillus NOR-S R CIP, LVX R
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Breakpoints 14 Bacillus anthracis genus_species is Bacillus anthracis PEN I AMX S
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Breakpoints 14 Bacillus anthracis genus_species is Bacillus anthracis PEN R AMX R
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Breakpoints 14 Bacillus anthracis genus_species is Bacillus anthracis TCY-S S DOX S
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Breakpoints 14 Bacillus anthracis genus_species is Bacillus anthracis TCY-S R DOX R
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Breakpoints 14 Brucella melitensis genus_species is Brucella melitensis TCY-S S DOX S
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Breakpoints 14 Brucella melitensis genus_species is Brucella melitensis TCY-S R DOX R
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Breakpoints 14 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY-S S DOX I
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Breakpoints 14 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY-S R DOX R
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Breakpoints 14 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY S AZM, CLR S
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Breakpoints 14 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY I AZM, CLR I
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Breakpoints 14 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY R AZM, CLR R
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Breakpoints 14 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY S DOX S
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Breakpoints 14 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY I DOX I
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Breakpoints 14 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY R DOX R
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Breakpoints 14 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I AMX S
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Breakpoints 14 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R AMX R
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Breakpoints 14 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I CTX I
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Breakpoints 14 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R CTX R
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Breakpoints 14 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I MEM S
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Breakpoints 14 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R MEM R
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Breakpoints 14 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY S DOX S
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Breakpoints 14 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY R DOX R
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Breakpoints 14 Enterobacterales (Order) order is Enterobacterales AMP S AMX S
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Breakpoints 14 Enterobacterales (Order) order is Enterobacterales AMP I AMX I
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Breakpoints 14 Enterobacterales (Order) order is Enterobacterales AMP R AMX R
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Breakpoints 14 Enterobacterales (Order) order is Enterobacterales LEX S CZO I
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Breakpoints 14 Enterobacterales (Order) order is Enterobacterales CFR S CZO I
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Breakpoints 14 Enterobacterales (Order) genus is Salmonella PEF-S S CIP S
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Breakpoints 14 Enterobacterales (Order) genus is Salmonella PEF-S I CIP I
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Breakpoints 14 Enterobacterales (Order) genus is Salmonella PEF-S R CIP R
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Breakpoints 14 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY S DOX S
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Breakpoints 14 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY I DOX I
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Breakpoints 14 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY R DOX R
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Breakpoints 14 Enterococcus genus is Enterococcus AMP S AMP, SAM, AMX, AMC, PIP, TZP S
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Breakpoints 14 Enterococcus genus is Enterococcus AMP I AMP, SAM, AMX, AMC, PIP, TZP I
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Breakpoints 14 Enterococcus genus is Enterococcus AMP R AMP, SAM, AMX, AMC, PIP, TZP R
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Breakpoints 14 Enterococcus genus is Enterococcus NOR-S S CIP, LVX S
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Breakpoints 14 Enterococcus genus is Enterococcus NOR-S I CIP, LVX I
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Breakpoints 14 Enterococcus genus is Enterococcus NOR-S R CIP, LVX R
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Breakpoints 14 Haemophilus influenzae genus_species is Haemophilus influenzae PEN-S S AMC, AMP, AMX, CFM, CPD, CPT, CRO, CTB, CTX, CXM, CZT, DOR, ETP, FEP, IMR, IPM, MEM, MEV, PEN, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("H. influenzae"))]), "IMR", "MEV"); sort(x[x %in% betalactams()])
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Breakpoints 14 Haemophilus influenzae genus_species is Haemophilus influenzae PEN-S, BLA-S R, R AMP, AMX, PIP R
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Breakpoints 14 Haemophilus influenzae genus_species is Haemophilus influenzae AMC S SAM S
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Breakpoints 14 Haemophilus influenzae genus_species is Haemophilus influenzae AMC I SAM I
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Breakpoints 14 Haemophilus influenzae genus_species is Haemophilus influenzae AMC R SAM R
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Breakpoints 14 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S S CIP, LVX, MFX, OFX S
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Breakpoints 14 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S I CIP, LVX, MFX, OFX I
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Breakpoints 14 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S R CIP, LVX, MFX, OFX R
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Breakpoints 14 Haemophilus influenzae genus_species is Haemophilus influenzae TCY S DOX, MNO S
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Breakpoints 14 Haemophilus influenzae genus_species is Haemophilus influenzae TCY R DOX, MNO R
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Breakpoints 14 Kingella kingae genus_species is Kingella kingae BLA-S R PEN, AMP, AMX R
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Breakpoints 14 Kingella kingae genus_species is Kingella kingae PEN S AMP, AMX S
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Breakpoints 14 Kingella kingae genus_species is Kingella kingae PEN I AMP, AMX I
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Breakpoints 14 Kingella kingae genus_species is Kingella kingae PEN R AMP, AMX R
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Breakpoints 14 Kingella kingae genus_species is Kingella kingae ERY S AZM, CLR S
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Breakpoints 14 Kingella kingae genus_species is Kingella kingae ERY I AZM, CLR I
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Breakpoints 14 Kingella kingae genus_species is Kingella kingae ERY R AZM, CLR R
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Breakpoints 14 Kingella kingae genus_species is Kingella kingae TCY S DOX S
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Breakpoints 14 Kingella kingae genus_species is Kingella kingae TCY R DOX R
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Breakpoints 14 Moraxella catarrhalis genus_species is Moraxella catarrhalis BLA-S R AMP, AMX, APL, APX, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CLO, CRB, CRN, DIC, EPC, FLC, HET, LEN, MEC, MET, MEZ, MTM, NAF, OXA, PEN, PHE, PHN, PIP, PME, PNM, PRB, PRC, PRP, PVM, SBC, SLT6, SRX, TAL, TEM, TIC R penicillins()[!penicillins() %in% betalactams_with_inhibitor()]
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Breakpoints 14 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC S TZP S
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Breakpoints 14 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC I TZP I
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Breakpoints 14 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC R TZP R
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Breakpoints 14 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL-S S CIP, LVX, MFX, OFX S
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Breakpoints 14 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL-S R CIP, LVX, MFX, OFX R
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Breakpoints 14 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY S AZM, CLR, RXT S
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Breakpoints 14 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY R AZM, CLR, RXT R
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Breakpoints 14 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY S DOX, MNO S
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Breakpoints 14 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY R DOX, MNO R
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Breakpoints 14 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S R AMP, AMX R
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Breakpoints 14 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, S AMP, AMX S
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Breakpoints 14 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, I AMP, AMX I
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Breakpoints 14 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, R AMP, AMX R
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Breakpoints 14 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S S MNO S
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Breakpoints 14 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S I MNO I
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Breakpoints 14 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S R MNO R
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Breakpoints 14 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S S DOX S
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Breakpoints 14 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S I DOX I
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Breakpoints 14 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S R DOX R
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Breakpoints 14 Pasteurella multocida genus_species is Pasteurella multocida PEN S AMP, AMX S
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Breakpoints 14 Pasteurella multocida genus_species is Pasteurella multocida PEN I AMP, AMX I
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Breakpoints 14 Pasteurella multocida genus_species is Pasteurella multocida PEN R AMP, AMX R
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Breakpoints 14 Pasteurella multocida genus_species is Pasteurella multocida NAL-S S CIP, LVX S
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Breakpoints 14 Pasteurella multocida genus_species is Pasteurella multocida NAL-S R CIP, LVX R
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Breakpoints 14 Staphylococcus genus_species is Staphylococcus aureus FOX-S R penicillins R See last sentence: Isolates that test resistant to cefoxitin are resistant to all penicillins
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Breakpoints 14 Staphylococcus genus_species is Staphylococcus aureus PEN, FOX-S S, S penicillins S
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Breakpoints 14 Staphylococcus genus_species is Staphylococcus aureus PEN, FOX-S R, S betalactams_with_inhibitor, isoxazolylpenicillins, NAF S
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Breakpoints 14 Staphylococcus genus is Staphylococcus FOX-S R PEN, PHN, AMP, AMX, PIP, TIC R
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Breakpoints 14 Staphylococcus genus_species is Staphylococcus saprophyticus AMP S AMP, SAM, AMX, AMC, PIP, TZP S
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Breakpoints 14 Staphylococcus genus is Staphylococcus FOX-S S BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP S sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 14 Staphylococcus genus is Staphylococcus FOX-S I BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP I sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 14 Staphylococcus genus is Staphylococcus FOX-S R BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP R sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 14 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R PEN, PHN, AMP, AMX, PIP, TIC R
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Breakpoints 14 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S S BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP S sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 14 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S I BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP I sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 14 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP R sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 14 Staphylococcus genus_species is Staphylococcus aureus FOX-S S CPT S
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Breakpoints 14 Staphylococcus genus_species is Staphylococcus aureus FOX-S S BPR S
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Breakpoints 14 Staphylococcus genus is Staphylococcus FOX-S S carbapenems S
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Breakpoints 14 Staphylococcus genus is Staphylococcus FOX-S I carbapenems I
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Breakpoints 14 Staphylococcus genus is Staphylococcus FOX-S R carbapenems R
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Breakpoints 14 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S S carbapenems S Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 14 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S I carbapenems I Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 14 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R carbapenems R Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 14 Staphylococcus genus is Staphylococcus NOR-S S MFX S
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Breakpoints 14 Staphylococcus genus is Staphylococcus NOR-S S CIP, LVX I
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Breakpoints 14 Staphylococcus genus_species is Staphylococcus coagulase-negative VAN, TEC S, S DAL S
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Breakpoints 14 Staphylococcus genus_species is Staphylococcus aureus VAN S DAL, ORI S
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Breakpoints 14 Staphylococcus genus_species is Staphylococcus aureus FOX-S, VAN R, S TLV S MRSA isolates are in this file safely denoted as FOX resistant
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Breakpoints 14 Staphylococcus genus is Staphylococcus ERY S AZM, CLR, RXT S
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Breakpoints 14 Staphylococcus genus is Staphylococcus TCY-S S DOX, MNO S
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Breakpoints 14 Staphylococcus genus_species is Staphylococcus aureus FOX-S S CTX, CRO I
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN S penicillins S
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN I penicillins I
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN R penicillins R
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN S AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP S penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN I AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP I penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN R AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP R penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S cephalosporins S
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I cephalosporins I
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R cephalosporins R
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S carbapenems S
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I carbapenems I
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R carbapenems R
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S S MFX S does not explicitly state that it is for other fluoroquinolones
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S S LVX I does not explicitly state that it is for other fluoroquinolones
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S R MFX, LVX R does not explicitly state that it is for other fluoroquinolones
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G VAN S DAL, ORI S
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY S AZM, CLR, RXT S
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY R AZM, CLR, RXT R
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY-S S DOX, MNO S
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Breakpoints 14 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY-S R DOX, MNO R
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PHN, PIP, SAM, TZP S x <- unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("S. pneumoniae") & clinical_breakpoints$ab != as.ab("cefaclor"))]); sort(c(x[x %in% betalactams()], "SAM", "PIP", "TZP", "PHN", "IMR", "MEV"))
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PHN, PIP, SAM, TZP S x <- unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("S. pneumoniae") & clinical_breakpoints$ab != as.ab("cefaclor"))]); sort(c(x[x %in% betalactams()], "SAM", "PIP", "TZP", "PHN", "IMR", "MEV"))
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S S CEC I
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S CEC I
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S R PEN, PHN R from flowchart: when OXA < 20 or PEN > 0.06
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN R PHN R from flowchart: when OXA < 20 or PEN > 0.06
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP S AMX, AMC, SAM, PIP, TZP S
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP I AMX, AMC, SAM, PIP, TZP I
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP R AMX, AMC, SAM, PIP, TZP R
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S S MFX S does not explicitly state that it is for other fluoroquinolones
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S S LVX I does not explicitly state that it is for other fluoroquinolones
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S R MFX, LVX R does not explicitly state that it is for other fluoroquinolones
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY S AZM, CLR, RXT S
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY R AZM, CLR, RXT R
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY-S S DOX, MNO S
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Breakpoints 14 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY-S R DOX, MNO R
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Breakpoints 14 Vibrio spp. genus is Vibrio PEF-S S CIP, LVX S
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Breakpoints 14 Vibrio spp. genus is Vibrio PEF-S I CIP, LVX I
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Breakpoints 14 Vibrio spp. genus is Vibrio PEF-S R CIP, LVX R
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Breakpoints 14 Vibrio spp. genus is Vibrio ERY S AZM S
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Breakpoints 14 Vibrio spp. genus is Vibrio ERY I AZM I
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Breakpoints 14 Vibrio spp. genus is Vibrio ERY R AZM R
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Breakpoints 14 Vibrio spp. genus is Vibrio TCY-S S DOX S
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Breakpoints 14 Vibrio spp. genus is Vibrio TCY-S I DOX I
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Breakpoints 14 Vibrio spp. genus is Vibrio TCY-S R DOX R
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Breakpoints 14 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN-S S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PIP, SAM, TZP S will be expanded in eucast_rules()
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Breakpoints 14 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN-S R AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PIP, SAM, TZP R will be expanded in eucast_rules()
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Breakpoints 14 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP S AMX, AMC, SAM, PIP, TZP S will be expanded in eucast_rules()
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Breakpoints 14 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP I AMX, AMC, SAM, PIP, TZP I will be expanded in eucast_rules()
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Breakpoints 14 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP R AMX, AMC, SAM, PIP, TZP R will be expanded in eucast_rules()
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Breakpoints 15 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP S AMX S
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Breakpoints 15 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP I AMX I
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Breakpoints 15 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP R AMX R
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Breakpoints 15 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP S LVX S
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Breakpoints 15 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP I LVX I
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Breakpoints 15 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP R LVX R
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Breakpoints 15 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S S fluoroquinolones S
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Breakpoints 15 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S I fluoroquinolones I
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Breakpoints 15 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S R fluoroquinolones R
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Breakpoints 15 Anaerobic bacteria genus is Prevotella PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & mo_genus(clinical_breakpoints$mo) == "Prevotella")]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 15 Anaerobic bacteria genus is Prevotella AMP S AMX S
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Breakpoints 15 Anaerobic bacteria genus is Prevotella AMP I AMX I
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Breakpoints 15 Anaerobic bacteria genus is Prevotella AMP R AMX R
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Breakpoints 15 Anaerobic bacteria genus_species is Fusobacterium necrophorum PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & clinical_breakpoints$mo == as.mo("Fusobacterium necrophorum"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 15 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP S AMX S
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Breakpoints 15 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP I AMX I
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Breakpoints 15 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP R AMX R
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Breakpoints 15 Anaerobic bacteria genus_species is Clostridium perfringens PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & clinical_breakpoints$mo == as.mo("Fusobacterium necrophorum"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 15 Anaerobic bacteria genus_species is Clostridium perfringens AMP S AMX S
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Breakpoints 15 Anaerobic bacteria genus_species is Clostridium perfringens AMP I AMX I
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Breakpoints 15 Anaerobic bacteria genus_species is Clostridium perfringens AMP R AMX R
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Breakpoints 15 Anaerobic bacteria genus_species is Cutibacterium acnes PEN S AMC, AMP, AMX, CRO, CTX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & clinical_breakpoints$mo == as.mo("Cutibacterium acnes"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM", "TZP", "CTX", "CRO"); sort(x[x %in% betalactams()])
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Breakpoints 15 Anaerobic bacteria genus_species is Cutibacterium acnes AMP S AMX S
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Breakpoints 15 Anaerobic bacteria genus_species is Cutibacterium acnes AMP I AMX I
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Breakpoints 15 Anaerobic bacteria genus_species is Cutibacterium acnes AMP R AMX R
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Breakpoints 15 Anaerobic bacteria genus_species is Cutibacterium acnes CTX S CRO S
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Breakpoints 15 Anaerobic bacteria genus_species is Cutibacterium acnes CTX I CRO I
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Breakpoints 15 Anaerobic bacteria genus_species is Cutibacterium acnes CTX R CRO R
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Breakpoints 15 Bacillus genus is Bacillus NOR-S S CIP, LVX I
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Breakpoints 15 Bacillus genus is Bacillus NOR-S R CIP, LVX R
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Breakpoints 15 Bacillus anthracis genus_species is Bacillus anthracis PEN I AMX S
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Breakpoints 15 Bacillus anthracis genus_species is Bacillus anthracis PEN R AMX R
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Breakpoints 15 Bacillus anthracis genus_species is Bacillus anthracis TCY-S S DOX S
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Breakpoints 15 Bacillus anthracis genus_species is Bacillus anthracis TCY-S R DOX R
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Breakpoints 15 Brucella melitensis genus_species is Brucella melitensis TCY-S S DOX S
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Breakpoints 15 Brucella melitensis genus_species is Brucella melitensis TCY-S R DOX R
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Breakpoints 15 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY-S S DOX I
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Breakpoints 15 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY-S R DOX R
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Breakpoints 15 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY S AZM, CLR S
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Breakpoints 15 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY I AZM, CLR I
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Breakpoints 15 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY R AZM, CLR R
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Breakpoints 15 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY S DOX S
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Breakpoints 15 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY I DOX I
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Breakpoints 15 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY R DOX R
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Breakpoints 15 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I AMX S
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Breakpoints 15 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R AMX R
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Breakpoints 15 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I CTX I
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Breakpoints 15 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R CTX R
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Breakpoints 15 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I MEM S
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Breakpoints 15 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R MEM R
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Breakpoints 15 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY S DOX S
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Breakpoints 15 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY R DOX R
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Breakpoints 15 Enterobacterales (Order) order is Enterobacterales AMP S AMX S
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Breakpoints 15 Enterobacterales (Order) order is Enterobacterales AMP I AMX I
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Breakpoints 15 Enterobacterales (Order) order is Enterobacterales AMP R AMX R
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Breakpoints 15 Enterobacterales (Order) order is Enterobacterales LEX S CZO I
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Breakpoints 15 Enterobacterales (Order) order is Enterobacterales CFR S CZO I
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Breakpoints 15 Enterobacterales (Order) genus is Salmonella PEF-S S CIP S
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Breakpoints 15 Enterobacterales (Order) genus is Salmonella PEF-S I CIP I
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Breakpoints 15 Enterobacterales (Order) genus is Salmonella PEF-S R CIP R
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Breakpoints 15 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY S DOX S
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Breakpoints 15 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY I DOX I
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Breakpoints 15 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY R DOX R
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Breakpoints 15 Enterococcus genus is Enterococcus AMP S AMP, SAM, AMX S
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Breakpoints 15 Enterococcus genus is Enterococcus AMP I AMP, SAM, AMX I
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Breakpoints 15 Enterococcus genus is Enterococcus AMP R AMP, SAM, AMX R
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Breakpoints 15 Enterococcus genus is Enterococcus AMP R AMX, AMC R
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Breakpoints 15 Enterococcus genus is Enterococcus NOR-S S CIP, LVX S
|
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Breakpoints 15 Enterococcus genus is Enterococcus NOR-S I CIP, LVX I
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Breakpoints 15 Enterococcus genus is Enterococcus NOR-S R CIP, LVX R
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Breakpoints 15 Haemophilus influenzae genus_species is Haemophilus influenzae PEN-S S AMC, AMP, AMX, CFM, CPD, CPT, CRO, CTB, CTX, CXM, CZT, DOR, ETP, FEP, IMR, IPM, MEM, MEV, PEN, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("H. influenzae"))]), "IMR", "MEV"); sort(x[x %in% betalactams()])
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Breakpoints 15 Haemophilus influenzae genus_species is Haemophilus influenzae PEN-S, BLA-S R, R AMP, AMX, PIP R
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Breakpoints 15 Haemophilus influenzae genus_species is Haemophilus influenzae AMC S SAM S
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Breakpoints 15 Haemophilus influenzae genus_species is Haemophilus influenzae AMC I SAM I
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Breakpoints 15 Haemophilus influenzae genus_species is Haemophilus influenzae AMC R SAM R
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Breakpoints 15 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S S CIP, LVX, MFX, OFX S
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Breakpoints 15 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S R CIP, LVX, MFX, OFX R
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Breakpoints 15 Haemophilus influenzae genus_species is Haemophilus influenzae TCY S DOX, MNO S
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Breakpoints 15 Haemophilus influenzae genus_species is Haemophilus influenzae TCY R DOX, MNO R
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Breakpoints 15 Kingella kingae genus_species is Kingella kingae BLA-S R PEN, AMP, AMX R
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Breakpoints 15 Kingella kingae genus_species is Kingella kingae PEN S AMP, AMX S
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Breakpoints 15 Kingella kingae genus_species is Kingella kingae PEN I AMP, AMX I
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Breakpoints 15 Kingella kingae genus_species is Kingella kingae PEN R AMP, AMX R
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Breakpoints 15 Kingella kingae genus_species is Kingella kingae ERY S AZM, CLR S
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Breakpoints 15 Kingella kingae genus_species is Kingella kingae ERY I AZM, CLR I
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Breakpoints 15 Kingella kingae genus_species is Kingella kingae ERY R AZM, CLR R
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Breakpoints 15 Kingella kingae genus_species is Kingella kingae TCY S DOX S
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Breakpoints 15 Kingella kingae genus_species is Kingella kingae TCY R DOX R
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Breakpoints 15 Moraxella catarrhalis genus_species is Moraxella catarrhalis BLA-S R AMP, AMX, APL, APX, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CLO, CRB, CRN, DIC, EPC, FLC, HET, LEN, MEC, MET, MEZ, MTM, NAF, OXA, PEN, PHE, PHN, PIP, PME, PNM, PRB, PRC, PRP, PVM, SBC, SLT6, SRX, TAL, TEM, TIC R penicillins()[!penicillins() %in% betalactams_with_inhibitor()]
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Breakpoints 15 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC S TZP S
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Breakpoints 15 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC I TZP I
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Breakpoints 15 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC R TZP R
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Breakpoints 15 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL-S S CIP, LVX, MFX, OFX S
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Breakpoints 15 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL-S R CIP, LVX, MFX, OFX R
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Breakpoints 15 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY S AZM, CLR, RXT S
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Breakpoints 15 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY R AZM, CLR, RXT R
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Breakpoints 15 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY S DOX, MNO S
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Breakpoints 15 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY R DOX, MNO R
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Breakpoints 15 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S R AMP, AMX R
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Breakpoints 15 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, S AMP, AMX S
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Breakpoints 15 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, I AMP, AMX I
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Breakpoints 15 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, R AMP, AMX R
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Breakpoints 15 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S S MNO S
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Breakpoints 15 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S I MNO I
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Breakpoints 15 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S R MNO R
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Breakpoints 15 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S S DOX S
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Breakpoints 15 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S I DOX I
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Breakpoints 15 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S R DOX R
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Breakpoints 15 Pasteurella multocida genus_species is Pasteurella multocida PEN S AMP, AMX S
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Breakpoints 15 Pasteurella multocida genus_species is Pasteurella multocida PEN I AMP, AMX I
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Breakpoints 15 Pasteurella multocida genus_species is Pasteurella multocida PEN R AMP, AMX R
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Breakpoints 15 Pasteurella multocida genus_species is Pasteurella multocida NAL-S S CIP, LVX S
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Breakpoints 15 Pasteurella multocida genus_species is Pasteurella multocida NAL-S R CIP, LVX R
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Breakpoints 15 Staphylococcus genus_species is Staphylococcus aureus FOX-S R penicillins R See last sentence: Isolates that test resistant to cefoxitin are resistant to all penicillins
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Breakpoints 15 Staphylococcus genus_species is Staphylococcus aureus PEN, FOX-S S, S penicillins S
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Breakpoints 15 Staphylococcus genus_species is Staphylococcus aureus PEN, FOX-S R, S betalactams_with_inhibitor, isoxazolylpenicillins, NAF S
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Breakpoints 15 Staphylococcus genus is Staphylococcus FOX-S R PEN, PHN, AMP, AMX, PIP, TIC R
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Breakpoints 15 Staphylococcus genus_species is Staphylococcus saprophyticus AMP S AMP, SAM, AMX, AMC, PIP, TZP S
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Breakpoints 15 Staphylococcus genus is Staphylococcus FOX-S S BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP S sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 15 Staphylococcus genus is Staphylococcus FOX-S I BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP I sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 15 Staphylococcus genus is Staphylococcus FOX-S R BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP R sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 15 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R PEN, PHN, AMP, AMX, PIP, TIC R
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Breakpoints 15 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S S BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP S sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 15 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S I BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP I sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 15 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP R sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 15 Staphylococcus genus_species is Staphylococcus aureus FOX-S S CPT S
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Breakpoints 15 Staphylococcus genus_species is Staphylococcus aureus FOX-S S BPR S
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Breakpoints 15 Staphylococcus genus is Staphylococcus FOX-S S carbapenems S
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Breakpoints 15 Staphylococcus genus is Staphylococcus FOX-S I carbapenems I
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Breakpoints 15 Staphylococcus genus is Staphylococcus FOX-S R carbapenems R
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Breakpoints 15 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S S carbapenems S Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 15 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S I carbapenems I Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 15 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R carbapenems R Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 15 Staphylococcus genus is Staphylococcus NOR-S S MFX S
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Breakpoints 15 Staphylococcus genus is Staphylococcus NOR-S S CIP, LVX I
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Breakpoints 15 Staphylococcus genus is Staphylococcus ERY S AZM, CLR, RXT S
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Breakpoints 15 Staphylococcus genus is Staphylococcus TCY-S S DOX, MNO S
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Breakpoints 15 Staphylococcus genus_species is Staphylococcus aureus FOX-S S CTX, CRO I
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN S penicillins S
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN I penicillins I
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN R penicillins R
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN S AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP S penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN I AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP I penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN R AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP R penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S cephalosporins S
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I cephalosporins I
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R cephalosporins R
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S carbapenems S
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I carbapenems I
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R carbapenems R
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S S MFX S does not explicitly state that it is for other fluoroquinolones
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S S LVX I does not explicitly state that it is for other fluoroquinolones
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S R MFX, LVX R does not explicitly state that it is for other fluoroquinolones
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G VAN S DAL, ORI S
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY S AZM, CLR, RXT S
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY R AZM, CLR, RXT R
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY-S S DOX, MNO S
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Breakpoints 15 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY-S R DOX, MNO R
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PHN, PIP, SAM, TZP S x <- unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("S. pneumoniae") & clinical_breakpoints$ab != as.ab("cefaclor"))]); sort(c(x[x %in% betalactams()], "SAM", "PIP", "TZP", "PHN", "IMR", "MEV"))
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PHN, PIP, SAM, TZP S x <- unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("S. pneumoniae") & clinical_breakpoints$ab != as.ab("cefaclor"))]); sort(c(x[x %in% betalactams()], "SAM", "PIP", "TZP", "PHN", "IMR", "MEV"))
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S S CEC I
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S CEC I
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S R PEN, PHN R from flowchart: when OXA < 20 or PEN > 0.06
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN R PHN R from flowchart: when OXA < 20 or PEN > 0.06
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP S AMX, AMC, SAM, PIP, TZP S
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP I AMX, AMC, SAM, PIP, TZP I
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP R AMX, AMC, SAM, PIP, TZP R
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S S MFX S does not explicitly state that it is for other fluoroquinolones
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S S LVX I does not explicitly state that it is for other fluoroquinolones
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S R MFX, LVX R does not explicitly state that it is for other fluoroquinolones
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY S AZM, CLR, RXT S
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY R AZM, CLR, RXT R
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY-S S DOX, MNO S
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Breakpoints 15 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY-S R DOX, MNO R
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Breakpoints 15 Vibrio spp. genus is Vibrio PEF-S S CIP, LVX S
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Breakpoints 15 Vibrio spp. genus is Vibrio PEF-S I CIP, LVX I
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Breakpoints 15 Vibrio spp. genus is Vibrio PEF-S R CIP, LVX R
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Breakpoints 15 Vibrio spp. genus is Vibrio ERY S AZM S
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Breakpoints 15 Vibrio spp. genus is Vibrio ERY I AZM I
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Breakpoints 15 Vibrio spp. genus is Vibrio ERY R AZM R
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Breakpoints 15 Vibrio spp. genus is Vibrio TCY-S S DOX S
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Breakpoints 15 Vibrio spp. genus is Vibrio TCY-S I DOX I
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Breakpoints 15 Vibrio spp. genus is Vibrio TCY-S R DOX R
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Breakpoints 15 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN-S S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PIP, SAM, TZP S MO group name will be expanded in eucast_rules()
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Breakpoints 15 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN-S R AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PIP, SAM, TZP R MO group name will be expanded in eucast_rules()
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Breakpoints 15 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP S AMX, AMC, SAM, PIP, TZP S MO group name will be expanded in eucast_rules()
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Breakpoints 15 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP I AMX, AMC, SAM, PIP, TZP I MO group name will be expanded in eucast_rules()
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Breakpoints 15 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP R AMX, AMC, SAM, PIP, TZP R MO group name will be expanded in eucast_rules()
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Breakpoints 16 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP S AMX S
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Breakpoints 16 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP I AMX I
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Breakpoints 16 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP R AMX R
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Breakpoints 16 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP S LVX S
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Breakpoints 16 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP I LVX I
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Breakpoints 16 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP R LVX R
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Breakpoints 16 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S S fluoroquinolones S
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Breakpoints 16 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S I fluoroquinolones I
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Breakpoints 16 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S R fluoroquinolones R
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Breakpoints 16 Anaerobic bacteria genus is Prevotella PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & mo_genus(clinical_breakpoints$mo) == "Prevotella")]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 16 Anaerobic bacteria genus is Prevotella AMP S AMX S
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Breakpoints 16 Anaerobic bacteria genus is Prevotella AMP I AMX I
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Breakpoints 16 Anaerobic bacteria genus is Prevotella AMP R AMX R
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Breakpoints 16 Anaerobic bacteria genus_species is Fusobacterium necrophorum PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & clinical_breakpoints$mo == as.mo("Fusobacterium necrophorum"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 16 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP S AMX S
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Breakpoints 16 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP I AMX I
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Breakpoints 16 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP R AMX R
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Breakpoints 16 Anaerobic bacteria genus_species is Clostridium perfringens PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & clinical_breakpoints$mo == as.mo("Fusobacterium necrophorum"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 16 Anaerobic bacteria genus_species is Clostridium perfringens AMP S AMX S
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Breakpoints 16 Anaerobic bacteria genus_species is Clostridium perfringens AMP I AMX I
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Breakpoints 16 Anaerobic bacteria genus_species is Clostridium perfringens AMP R AMX R
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Breakpoints 16 Anaerobic bacteria genus_species is Cutibacterium acnes PEN S AMC, AMP, AMX, CRO, CTX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2024" & clinical_breakpoints$mo == as.mo("Cutibacterium acnes"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM", "TZP", "CTX", "CRO"); sort(x[x %in% betalactams()])
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Breakpoints 16 Anaerobic bacteria genus_species is Cutibacterium acnes AMP S AMX S
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Breakpoints 16 Anaerobic bacteria genus_species is Cutibacterium acnes AMP I AMX I
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Breakpoints 16 Anaerobic bacteria genus_species is Cutibacterium acnes AMP R AMX R
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Breakpoints 16 Anaerobic bacteria genus_species is Cutibacterium acnes CTX S CRO S
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Breakpoints 16 Anaerobic bacteria genus_species is Cutibacterium acnes CTX I CRO I
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Breakpoints 16 Anaerobic bacteria genus_species is Cutibacterium acnes CTX R CRO R
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Breakpoints 16 Bacillus genus is Bacillus NOR-S S CIP, LVX I
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Breakpoints 16 Bacillus genus is Bacillus NOR-S R CIP, LVX R
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Breakpoints 16 Bacillus anthracis genus_species is Bacillus anthracis PEN I AMX S
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Breakpoints 16 Bacillus anthracis genus_species is Bacillus anthracis PEN R AMX R
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Breakpoints 16 Bacillus anthracis genus_species is Bacillus anthracis TCY-S S DOX S
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Breakpoints 16 Bacillus anthracis genus_species is Bacillus anthracis TCY-S R DOX R
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Breakpoints 16 Brucella melitensis genus_species is Brucella melitensis TCY-S S DOX S
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Breakpoints 16 Brucella melitensis genus_species is Brucella melitensis TCY-S R DOX R
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Breakpoints 16 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY-S S DOX I
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Breakpoints 16 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY-S R DOX R
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Breakpoints 16 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY S AZM, CLR S
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Breakpoints 16 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY I AZM, CLR I
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Breakpoints 16 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY R AZM, CLR R
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Breakpoints 16 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY S DOX S
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Breakpoints 16 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY I DOX I
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Breakpoints 16 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY R DOX R
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Breakpoints 16 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I AMX S
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Breakpoints 16 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R AMX R
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Breakpoints 16 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I CTX I
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Breakpoints 16 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R CTX R
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Breakpoints 16 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I MEM S
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Breakpoints 16 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R MEM R
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Breakpoints 16 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY S DOX S
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Breakpoints 16 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY R DOX R
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Breakpoints 16 Enterobacterales (Order) order is Enterobacterales AMP S AMX S
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Breakpoints 16 Enterobacterales (Order) order is Enterobacterales AMP I AMX I
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Breakpoints 16 Enterobacterales (Order) order is Enterobacterales AMP R AMX R
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Breakpoints 16 Enterobacterales (Order) order is Enterobacterales LEX S CZO I
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Breakpoints 16 Enterobacterales (Order) order is Enterobacterales CFR S CZO I
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Breakpoints 16 Enterobacterales (Order) genus is Salmonella PEF-S S CIP S
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Breakpoints 16 Enterobacterales (Order) genus is Salmonella PEF-S I CIP I
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Breakpoints 16 Enterobacterales (Order) genus is Salmonella PEF-S R CIP R
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Breakpoints 16 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY S DOX S
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Breakpoints 16 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY I DOX I
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Breakpoints 16 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY R DOX R
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Breakpoints 16 Enterococcus genus is Enterococcus AMP S AMP, SAM, AMX S
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Breakpoints 16 Enterococcus genus is Enterococcus AMP I AMP, SAM, AMX I
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Breakpoints 16 Enterococcus genus is Enterococcus AMP R AMP, SAM, AMX R
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Breakpoints 16 Enterococcus genus is Enterococcus AMP R AMX, AMC R
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Breakpoints 16 Enterococcus genus is Enterococcus NOR-S S CIP, LVX S
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Breakpoints 16 Enterococcus genus is Enterococcus NOR-S I CIP, LVX I
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Breakpoints 16 Enterococcus genus is Enterococcus NOR-S R CIP, LVX R
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Breakpoints 16 Haemophilus influenzae genus_species is Haemophilus influenzae PEN-S S AMC, AMP, AMX, CFM, CPD, CPT, CRO, CTB, CTX, CXM, CZT, DOR, ETP, FEP, IMR, IPM, MEM, MEV, PEN, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("H. influenzae"))]), "IMR", "MEV"); sort(x[x %in% betalactams()])
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Breakpoints 16 Haemophilus influenzae genus_species is Haemophilus influenzae PEN-S, BLA-S R, R AMP, AMX, PIP R
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Breakpoints 16 Haemophilus influenzae genus_species is Haemophilus influenzae AMC S SAM S
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Breakpoints 16 Haemophilus influenzae genus_species is Haemophilus influenzae AMC I SAM I
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Breakpoints 16 Haemophilus influenzae genus_species is Haemophilus influenzae AMC R SAM R
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Breakpoints 16 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S S CIP, LVX, MFX, OFX S
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Breakpoints 16 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S R CIP, LVX, MFX, OFX R
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Breakpoints 16 Haemophilus influenzae genus_species is Haemophilus influenzae TCY S DOX, MNO S
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Breakpoints 16 Haemophilus influenzae genus_species is Haemophilus influenzae TCY R DOX, MNO R
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Breakpoints 16 Kingella kingae genus_species is Kingella kingae BLA-S R PEN, AMP, AMX R
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Breakpoints 16 Kingella kingae genus_species is Kingella kingae PEN S AMP, AMX S
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Breakpoints 16 Kingella kingae genus_species is Kingella kingae PEN I AMP, AMX I
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Breakpoints 16 Kingella kingae genus_species is Kingella kingae PEN R AMP, AMX R
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Breakpoints 16 Kingella kingae genus_species is Kingella kingae ERY S AZM, CLR S
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Breakpoints 16 Kingella kingae genus_species is Kingella kingae ERY I AZM, CLR I
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Breakpoints 16 Kingella kingae genus_species is Kingella kingae ERY R AZM, CLR R
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Breakpoints 16 Kingella kingae genus_species is Kingella kingae TCY S DOX S
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Breakpoints 16 Kingella kingae genus_species is Kingella kingae TCY R DOX R
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Breakpoints 16 Moraxella catarrhalis genus_species is Moraxella catarrhalis BLA-S R AMP, AMX, APL, APX, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CLO, CRB, CRN, DIC, EPC, FLC, HET, LEN, MEC, MET, MEZ, MTM, NAF, OXA, PEN, PHE, PHN, PIP, PME, PNM, PRB, PRC, PRP, PVM, SBC, SLT6, SRX, TAL, TEM, TIC R penicillins()[!penicillins() %in% betalactams_with_inhibitor()]
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Breakpoints 16 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC S TZP S
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Breakpoints 16 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC I TZP I
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Breakpoints 16 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC R TZP R
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Breakpoints 16 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL-S S CIP, LVX, MFX, OFX S
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Breakpoints 16 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL-S R CIP, LVX, MFX, OFX R
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Breakpoints 16 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY S AZM, CLR, RXT S
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Breakpoints 16 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY R AZM, CLR, RXT R
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Breakpoints 16 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY S DOX, MNO S
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Breakpoints 16 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY R DOX, MNO R
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Breakpoints 16 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S R AMP, AMX R
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Breakpoints 16 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, S AMP, AMX S
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Breakpoints 16 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, I AMP, AMX I
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Breakpoints 16 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, R AMP, AMX R
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Breakpoints 16 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S S MNO S
|
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Breakpoints 16 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S I MNO I
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Breakpoints 16 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S R MNO R
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Breakpoints 16 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S S DOX S
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Breakpoints 16 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S I DOX I
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Breakpoints 16 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S R DOX R
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Breakpoints 16 Pasteurella multocida genus_species is Pasteurella multocida PEN S AMP, AMX S
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Breakpoints 16 Pasteurella multocida genus_species is Pasteurella multocida PEN I AMP, AMX I
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Breakpoints 16 Pasteurella multocida genus_species is Pasteurella multocida PEN R AMP, AMX R
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Breakpoints 16 Pasteurella multocida genus_species is Pasteurella multocida NAL-S S CIP, LVX S
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Breakpoints 16 Pasteurella multocida genus_species is Pasteurella multocida NAL-S R CIP, LVX R
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Breakpoints 16 Staphylococcus genus_species is Staphylococcus aureus FOX-S R penicillins R See last sentence: Isolates that test resistant to cefoxitin are resistant to all penicillins
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Breakpoints 16 Staphylococcus genus_species is Staphylococcus aureus PEN, FOX-S S, S penicillins S
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Breakpoints 16 Staphylococcus genus_species is Staphylococcus aureus PEN, FOX-S R, S betalactams_with_inhibitor, isoxazolylpenicillins, NAF S
|
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Breakpoints 16 Staphylococcus genus is Staphylococcus FOX-S R PEN, PHN, AMP, AMX, PIP, TIC R
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Breakpoints 16 Staphylococcus genus_species is Staphylococcus saprophyticus AMP S AMP, SAM, AMX, AMC, PIP, TZP S
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Breakpoints 16 Staphylococcus genus is Staphylococcus FOX-S S CZO, FEP, CTX, CRO, CXM I
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Breakpoints 16 Staphylococcus genus is Staphylococcus FOX-S S BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTA, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FEP, FOV, FOX, FPE, FPT, FPZ, FTA, HAP, LOR, LTM, MAN, RID, TIO, ZOP S sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("CZO", "FEP", "CTX", "CRO", "CXM", "cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "cefiderocol", "ceftolozan/tazobactam"))])) |> toString()
|
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Breakpoints 16 Staphylococcus genus is Staphylococcus FOX-S I BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTA, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FEP, FOV, FOX, FPE, FPT, FPZ, FTA, HAP, LOR, LTM, MAN, RID, TIO, ZOP I sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "cefiderocol", "ceftolozan/tazobactam"))])) |> toString()
|
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Breakpoints 16 Staphylococcus genus is Staphylococcus FOX-S R BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTA, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FEP, FOV, FOX, FPE, FPT, FPZ, FTA, HAP, LOR, LTM, MAN, RID, TIO, ZOP R sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "cefiderocol", "ceftolozan/tazobactam"))])) |> toString()
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Breakpoints 16 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R PEN, PHN, AMP, AMX, PIP, TIC R
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Breakpoints 16 Staphylococcus genus is Staphylococcus OXA-S S CZO, FEP, CTX, CRO, CXM I
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Breakpoints 16 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S S BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTA, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FEP, FOV, FOX, FPE, FPT, FPZ, FTA, HAP, LOR, LTM, MAN, RID, TIO, ZOP S sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("CZO", "FEP", "CTX", "CRO", "CXM", "cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "cefiderocol", "ceftolozan/tazobactam"))])) |> toString()
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Breakpoints 16 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S I BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTA, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FEP, FOV, FOX, FPE, FPT, FPZ, FTA, HAP, LOR, LTM, MAN, RID, TIO, ZOP I sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "cefiderocol", "ceftolozan/tazobactam"))])) |> toString()
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Breakpoints 16 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTA, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FEP, FOV, FOX, FPE, FPT, FPZ, FTA, HAP, LOR, LTM, MAN, RID, TIO, ZOP R sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "cefiderocol", "ceftolozan/tazobactam"))])) |> toString()
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Breakpoints 16 Staphylococcus genus_species is Staphylococcus aureus FOX-S S CPT S
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Breakpoints 16 Staphylococcus genus_species is Staphylococcus aureus FOX-S S BPR S
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Breakpoints 16 Staphylococcus genus is Staphylococcus FOX-S S carbapenems S
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Breakpoints 16 Staphylococcus genus is Staphylococcus FOX-S I carbapenems I
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Breakpoints 16 Staphylococcus genus is Staphylococcus FOX-S R carbapenems R
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Breakpoints 16 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S S carbapenems S Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 16 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S I carbapenems I Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 16 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R carbapenems R Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 16 Staphylococcus genus is Staphylococcus NOR-S S MFX S
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Breakpoints 16 Staphylococcus genus is Staphylococcus NOR-S S CIP, LVX I
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Breakpoints 16 Staphylococcus genus is Staphylococcus ERY S AZM, CLR, RXT S
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Breakpoints 16 Staphylococcus genus is Staphylococcus TCY-S S DOX, MNO S
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN S penicillins S
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN I penicillins I
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN R penicillins R
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|
Breakpoints 16 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN S AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP S penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN I AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP I penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN R AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP R penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S cephalosporins S
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I cephalosporins I
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R cephalosporins R
|
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S carbapenems S
|
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I carbapenems I
|
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R carbapenems R
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|
Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S S MFX S does not explicitly state that it is for other fluoroquinolones
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S S LVX I does not explicitly state that it is for other fluoroquinolones
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S R MFX, LVX R does not explicitly state that it is for other fluoroquinolones
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G VAN S DAL, ORI S
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY S AZM, CLR, RXT S
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY R AZM, CLR, RXT R
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY-S S DOX, MNO S
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Breakpoints 16 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY-S R DOX, MNO R
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PHN, PIP, SAM, TZP S x <- unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("S. pneumoniae") & clinical_breakpoints$ab != as.ab("cefaclor"))]); sort(c(x[x %in% betalactams()], "SAM", "PIP", "TZP", "PHN", "IMR", "MEV"))
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PHN, PIP, SAM, TZP S x <- unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("S. pneumoniae") & clinical_breakpoints$ab != as.ab("cefaclor"))]); sort(c(x[x %in% betalactams()], "SAM", "PIP", "TZP", "PHN", "IMR", "MEV"))
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S S CEC I
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S CEC I
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S R PEN, PHN R from flowchart: when OXA < 20 or PEN > 0.06
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN R PHN R from flowchart: when OXA < 20 or PEN > 0.06
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP S AMX, AMC, SAM, PIP, TZP S
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP I AMX, AMC, SAM, PIP, TZP I
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP R AMX, AMC, SAM, PIP, TZP R
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S S MFX S does not explicitly state that it is for other fluoroquinolones
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S S LVX I does not explicitly state that it is for other fluoroquinolones
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S R MFX, LVX R does not explicitly state that it is for other fluoroquinolones
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY S AZM, CLR, RXT S
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY R AZM, CLR, RXT R
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY-S S DOX, MNO S
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Breakpoints 16 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY-S R DOX, MNO R
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Breakpoints 16 Vibrio spp. genus is Vibrio PEF-S S CIP, LVX S
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Breakpoints 16 Vibrio spp. genus is Vibrio PEF-S I CIP, LVX I
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Breakpoints 16 Vibrio spp. genus is Vibrio PEF-S R CIP, LVX R
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Breakpoints 16 Vibrio spp. genus is Vibrio ERY S AZM S
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Breakpoints 16 Vibrio spp. genus is Vibrio ERY I AZM I
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Breakpoints 16 Vibrio spp. genus is Vibrio ERY R AZM R
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Breakpoints 16 Vibrio spp. genus is Vibrio TCY-S S DOX S
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Breakpoints 16 Vibrio spp. genus is Vibrio TCY-S I DOX I
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Breakpoints 16 Vibrio spp. genus is Vibrio TCY-S R DOX R
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Breakpoints 16 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN-S S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PIP, SAM, TZP S MO group name will be expanded in eucast_rules()
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Breakpoints 16 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN-S R AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PIP, SAM, TZP R MO group name will be expanded in eucast_rules()
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Breakpoints 16 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP S AMX, AMC, SAM, PIP, TZP S MO group name will be expanded in eucast_rules()
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Breakpoints 16 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP I AMX, AMC, SAM, PIP, TZP I MO group name will be expanded in eucast_rules()
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Breakpoints 16 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP R AMX, AMC, SAM, PIP, TZP R MO group name will be expanded in eucast_rules()
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Breakpoints 13.1 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP S AMX S
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Breakpoints 13.1 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP I AMX I
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Breakpoints 13.1 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae AMP R AMX R
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Breakpoints 13.1 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP S LVX S
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Breakpoints 13.1 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP I LVX I
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Breakpoints 13.1 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae CIP R LVX R
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Breakpoints 13.1 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S S fluoroquinolones S
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Breakpoints 13.1 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S I fluoroquinolones I
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Breakpoints 13.1 Aerococcus sanguinicola/urinae genus_species is Aerococcus sanguinicola, Aerococcus urinae NOR-S R fluoroquinolones R
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Breakpoints 13.1 Anaerobic bacteria genus is Prevotella PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2023" & mo_genus(clinical_breakpoints$mo) == "Prevotella")]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 13.1 Anaerobic bacteria genus is Prevotella AMP S AMX S
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Breakpoints 13.1 Anaerobic bacteria genus is Prevotella AMP I AMX I
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Breakpoints 13.1 Anaerobic bacteria genus is Prevotella AMP R AMX R
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Breakpoints 13.1 Anaerobic bacteria genus_species is Fusobacterium necrophorum PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2023" & clinical_breakpoints$mo == as.mo("Fusobacterium necrophorum"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 13.1 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP S AMX S
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Breakpoints 13.1 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP I AMX I
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Breakpoints 13.1 Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP R AMX R
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Breakpoints 13.1 Anaerobic bacteria genus_species is Clostridium perfringens PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2023" & clinical_breakpoints$mo == as.mo("Fusobacterium necrophorum"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints 13.1 Anaerobic bacteria genus_species is Clostridium perfringens AMP S AMX S
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Breakpoints 13.1 Anaerobic bacteria genus_species is Clostridium perfringens AMP I AMX I
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Breakpoints 13.1 Anaerobic bacteria genus_species is Clostridium perfringens AMP R AMX R
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Breakpoints 13.1 Anaerobic bacteria genus_species is Cutibacterium acnes PEN S AMC, AMP, AMX, CRO, CTX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2023" & clinical_breakpoints$mo == as.mo("Cutibacterium acnes"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM", "TZP", "CTX", "CRO"); sort(x[x %in% betalactams()])
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Breakpoints 13.1 Anaerobic bacteria genus_species is Cutibacterium acnes AMP S AMX S
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Breakpoints 13.1 Anaerobic bacteria genus_species is Cutibacterium acnes AMP I AMX I
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Breakpoints 13.1 Anaerobic bacteria genus_species is Cutibacterium acnes AMP R AMX R
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Breakpoints 13.1 Anaerobic bacteria genus_species is Cutibacterium acnes CTX S CRO S
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Breakpoints 13.1 Anaerobic bacteria genus_species is Cutibacterium acnes CTX I CRO I
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Breakpoints 13.1 Anaerobic bacteria genus_species is Cutibacterium acnes CTX R CRO R
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Breakpoints 13.1 Bacillus genus is Bacillus NOR-S S CIP, LVX I
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Breakpoints 13.1 Bacillus genus is Bacillus NOR-S R CIP, LVX R
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Breakpoints 13.1 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY-S S DOX I
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Breakpoints 13.1 Burkholderia pseudomallei genus_species is Burkholderia pseudomallei TCY-S R DOX R
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Breakpoints 13.1 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY S AZM, CLR S
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Breakpoints 13.1 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY I AZM, CLR I
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Breakpoints 13.1 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni ERY R AZM, CLR R
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Breakpoints 13.1 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY S DOX S
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Breakpoints 13.1 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY I DOX I
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Breakpoints 13.1 Campylobacter coli/jejuni genus_species one_of Campylobacter coli, Campylobacter jejuni TCY R DOX R
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Breakpoints 13.1 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I AMX S
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Breakpoints 13.1 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R AMX R
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Breakpoints 13.1 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN S CTX S
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Breakpoints 13.1 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I CTX I
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Breakpoints 13.1 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R CTX R
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Breakpoints 13.1 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I MEM S
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Breakpoints 13.1 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R MEM R
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Breakpoints 13.1 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY S DOX S
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Breakpoints 13.1 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY I DOX I
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Breakpoints 13.1 Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY R DOX R
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Breakpoints 13.1 Enterobacterales (Order) order is Enterobacterales AMP S AMX S
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Breakpoints 13.1 Enterobacterales (Order) order is Enterobacterales AMP I AMX I
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Breakpoints 13.1 Enterobacterales (Order) order is Enterobacterales AMP R AMX R
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Breakpoints 13.1 Enterobacterales (Order) order is Enterobacterales LEX S CZO I
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Breakpoints 13.1 Enterobacterales (Order) order is Enterobacterales CFR S CZO I
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Breakpoints 13.1 Enterobacterales (Order) genus is Salmonella PEF-S S CIP S
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Breakpoints 13.1 Enterobacterales (Order) genus is Salmonella PEF-S I CIP I
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Breakpoints 13.1 Enterobacterales (Order) genus is Salmonella PEF-S R CIP R
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Breakpoints 13.1 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY S DOX S
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Breakpoints 13.1 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY I DOX I
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Breakpoints 13.1 Enterobacterales (Order) genus_species is Yersinia enterocolitica TCY R DOX R
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Breakpoints 13.1 Enterococcus genus is Enterococcus AMP S AMP, SAM, AMX, AMC, PIP, TZP S
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Breakpoints 13.1 Enterococcus genus is Enterococcus AMP I AMP, SAM, AMX, AMC, PIP, TZP I
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Breakpoints 13.1 Enterococcus genus is Enterococcus AMP R AMP, SAM, AMX, AMC, PIP, TZP R
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Breakpoints 13.1 Enterococcus genus is Enterococcus NOR-S S CIP, LVX S
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Breakpoints 13.1 Enterococcus genus is Enterococcus NOR-S I CIP, LVX I
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Breakpoints 13.1 Enterococcus genus is Enterococcus NOR-S R CIP, LVX R
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Breakpoints 13.1 Haemophilus influenzae genus_species is Haemophilus influenzae PEN-S S AMC, AMP, AMX, CFM, CPD, CPT, CRO, CTB, CTX, CXM, CZT, DOR, ETP, FEP, IMR, IPM, MEM, MEV, PEN, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("H. influenzae"))]), "IMR", "MEV"); sort(x[x %in% betalactams()])
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Breakpoints 13.1 Haemophilus influenzae genus_species is Haemophilus influenzae PEN-S, BLA-S R, R AMP, AMX, PIP R
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Breakpoints 13.1 Haemophilus influenzae genus_species is Haemophilus influenzae AMC S SAM S
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Breakpoints 13.1 Haemophilus influenzae genus_species is Haemophilus influenzae AMC I SAM I
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Breakpoints 13.1 Haemophilus influenzae genus_species is Haemophilus influenzae AMC R SAM R
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Breakpoints 13.1 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S S CIP, LVX, MFX, OFX S
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Breakpoints 13.1 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S I CIP, LVX, MFX, OFX I
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Breakpoints 13.1 Haemophilus influenzae genus_species is Haemophilus influenzae NAL-S R CIP, LVX, MFX, OFX R
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Breakpoints 13.1 Haemophilus influenzae genus_species is Haemophilus influenzae TCY S DOX, MNO S
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Breakpoints 13.1 Haemophilus influenzae genus_species is Haemophilus influenzae TCY R DOX, MNO R
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Breakpoints 13.1 Kingella kingae genus_species is Kingella kingae BLA-S R PEN, AMP, AMX R
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Breakpoints 13.1 Kingella kingae genus_species is Kingella kingae PEN S AMP, AMX S
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Breakpoints 13.1 Kingella kingae genus_species is Kingella kingae PEN I AMP, AMX I
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Breakpoints 13.1 Kingella kingae genus_species is Kingella kingae PEN R AMP, AMX R
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Breakpoints 13.1 Kingella kingae genus_species is Kingella kingae ERY S AZM, CLR S
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Breakpoints 13.1 Kingella kingae genus_species is Kingella kingae ERY I AZM, CLR I
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Breakpoints 13.1 Kingella kingae genus_species is Kingella kingae ERY R AZM, CLR R
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Breakpoints 13.1 Kingella kingae genus_species is Kingella kingae TCY S DOX S
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Breakpoints 13.1 Kingella kingae genus_species is Kingella kingae TCY R DOX R
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Breakpoints 13.1 Moraxella catarrhalis genus_species is Moraxella catarrhalis BLA-S R AMP, AMX, APL, APX, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CLO, CRB, CRN, DIC, EPC, FLC, HET, LEN, MEC, MET, MEZ, MTM, NAF, OXA, PEN, PHE, PHN, PIP, PME, PNM, PRB, PRC, PRP, PVM, SBC, SLT6, SRX, TAL, TEM, TIC R penicillins()[!penicillins() %in% betalactams_with_inhibitor()]
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Breakpoints 13.1 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC S TZP S
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Breakpoints 13.1 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC I TZP I
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Breakpoints 13.1 Moraxella catarrhalis genus_species is Moraxella catarrhalis AMC R TZP R
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Breakpoints 13.1 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL-S S CIP, LVX, MFX, OFX S
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Breakpoints 13.1 Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL-S R CIP, LVX, MFX, OFX R
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Breakpoints 13.1 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY S AZM, CLR, RXT S
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Breakpoints 13.1 Moraxella catarrhalis genus_species is Moraxella catarrhalis ERY R AZM, CLR, RXT R
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Breakpoints 13.1 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY S DOX, MNO S
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Breakpoints 13.1 Moraxella catarrhalis genus_species is Moraxella catarrhalis TCY R DOX, MNO R
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Breakpoints 13.1 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S R AMP, AMX R
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Breakpoints 13.1 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, S AMP, AMX S
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Breakpoints 13.1 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, I AMP, AMX I
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Breakpoints 13.1 Neisseria gonorrhoeae genus_species is Neisseria gonorrhoeae BLA-S, PEN S, R AMP, AMX R
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Breakpoints 13.1 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S S MNO S
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Breakpoints 13.1 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S I MNO I
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Breakpoints 13.1 Neisseria meningitidis genus_species is Neisseria meningitidis TCY-S R MNO R
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Breakpoints 13.1 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S S DOX S
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Breakpoints 13.1 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S I DOX I
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Breakpoints 13.1 Neisseria meningitidis genus_species is Pasteurella multocida TCY-S R DOX R
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Breakpoints 13.1 Pasteurella multocida genus_species is Pasteurella multocida PEN S AMP, AMX S
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Breakpoints 13.1 Pasteurella multocida genus_species is Pasteurella multocida PEN I AMP, AMX I
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Breakpoints 13.1 Pasteurella multocida genus_species is Pasteurella multocida PEN R AMP, AMX R
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Breakpoints 13.1 Pasteurella multocida genus_species is Pasteurella multocida NAL-S S CIP, LVX S
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Breakpoints 13.1 Pasteurella multocida genus_species is Pasteurella multocida NAL-S R CIP, LVX R
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Breakpoints 13.1 Staphylococcus genus_species is Staphylococcus aureus FOX-S R penicillins R See last sentence: Isolates that test resistant to cefoxitin are resistant to all penicillins
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Breakpoints 13.1 Staphylococcus genus_species is Staphylococcus aureus PEN, FOX-S S, S penicillins S
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Breakpoints 13.1 Staphylococcus genus_species is Staphylococcus aureus PEN, FOX-S R, S betalactams_with_inhibitor, isoxazolylpenicillins, NAF S
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Breakpoints 13.1 Staphylococcus genus is Staphylococcus FOX-S R PEN, PHN, AMP, AMX, PIP, TIC R
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Breakpoints 13.1 Staphylococcus genus_species is Staphylococcus saprophyticus AMP S AMP, SAM, AMX, AMC, PIP, TZP S
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Breakpoints 13.1 Staphylococcus genus is Staphylococcus FOX-S S BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP S sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 13.1 Staphylococcus genus is Staphylococcus FOX-S I BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP I sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 13.1 Staphylococcus genus is Staphylococcus FOX-S R BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP R sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 13.1 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R PEN, PHN, AMP, AMX, PIP, TIC R
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Breakpoints 13.1 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S S BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP S sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 13.1 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S I BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP I sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 13.1 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R BPR, CAC, CAT, CCL, CCP, CCV, CCX, CDC, CDR, CEB, CEC, CED, CEM, CEP, CEQ, CFA, CFM, CFM1, CFP, CFR, CFS, CFZ, CHE, CID, CMX, CMZ, CND, CPA, CPC, CPD, CPI, CPL, CPM, CPO, CPR, CPT, CPX, CRD, CRO, CSE, CSL, CSU, CTC, CTF, CTL, CTS, CTT, CTX, CTZ, CXA, CXM, CZD, CZL, CZO, CZP, CZX, DIT, DIX, DIZ, FDC, FEP, FNC, FOV, FOX, FOX-S, FPT, FPZ, HAP, LOR, LTM, MAN, RID, TIO, ZOP R sort(c(cephalosporins()[!cephalosporins() %in% as.ab(c("cefalexin", "ceftazidim", "ceftazidim/avibactam", "ceftibuten", "ceftolozan/tazobactam"))]))
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Breakpoints 13.1 Staphylococcus genus_species is Staphylococcus aureus FOX-S S CPT S
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Breakpoints 13.1 Staphylococcus genus_species is Staphylococcus aureus FOX-S S BPR S
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Breakpoints 13.1 Staphylococcus genus is Staphylococcus FOX-S S carbapenems S
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Breakpoints 13.1 Staphylococcus genus is Staphylococcus FOX-S I carbapenems I
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Breakpoints 13.1 Staphylococcus genus is Staphylococcus FOX-S R carbapenems R
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Breakpoints 13.1 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S S carbapenems S Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 13.1 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S I carbapenems I Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 13.1 Staphylococcus genus_species one_of Staphylococcus pseudintermedius, Staphylococcus schleiferi, Staphylococcus coagulans OXA-S R carbapenems R Not explicitly mentioned in guidelines in this section, but previous section about these 3 species do mention OXA as preferred method
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Breakpoints 13.1 Staphylococcus genus is Staphylococcus NOR-S S MFX S
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Breakpoints 13.1 Staphylococcus genus is Staphylococcus NOR-S S CIP, LVX I
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Breakpoints 13.1 Staphylococcus genus_species is Staphylococcus aureus VAN S DAL, ORI S
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Breakpoints 13.1 Staphylococcus genus_species is Staphylococcus aureus FOX-S, VAN R, S TLV S MRSA isolates are in this file safely denoted as FOX resistant
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Breakpoints 13.1 Staphylococcus genus is Staphylococcus ERY S AZM, CLR, RXT S
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Breakpoints 13.1 Staphylococcus genus is Staphylococcus TCY-S S DOX, MNO S
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN S penicillins S
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN I penicillins I
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group C, Streptococcus Group G PEN R penicillins R
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN S AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP S penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN I AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP I penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species is Streptococcus Group B PEN R AMC, AMP, AMX, APL, APX, AXS, AZD, AZL, BAM, BNB, BNP, CIC, CLM, CRB, CRN, EPC, HET, LEN, MEC, MEZ, MSU, MTM, NAF, PEN, PHE, PIP, PIS, PME, PNM, PNO, PRB, PRC, PRP, PSU, PVM, SAM, SBC, SLT6, SRX, TAL, TCC, TEM, TIC, TZP R penicillins()[!penicillins() %in% c("PHN", isoxazolylpenicillins())]
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S cephalosporins S
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I cephalosporins I
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R cephalosporins R
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S carbapenems S
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN I carbapenems I
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN R carbapenems R
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S S MFX S does not explicitly state that it is for other fluoroquinolones
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S S LVX I does not explicitly state that it is for other fluoroquinolones
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR-S R MFX, LVX R does not explicitly state that it is for other fluoroquinolones
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G VAN S DAL, ORI S
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY S AZM, CLR, RXT S
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G ERY R AZM, CLR, RXT R
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY-S S DOX, MNO S
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Breakpoints 13.1 Streptococcus groups A, B, C, G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G TCY-S R DOX, MNO R
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PHN, PIP, SAM, TZP S x <- unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("S. pneumoniae") & clinical_breakpoints$ab != as.ab("cefaclor"))]); sort(c(x[x %in% betalactams()], "SAM", "PIP", "TZP", "PHN", "IMR", "MEV"))
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PHN, PIP, SAM, TZP S x <- unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2022" & clinical_breakpoints$mo == as.mo("S. pneumoniae") & clinical_breakpoints$ab != as.ab("cefaclor"))]); sort(c(x[x %in% betalactams()], "SAM", "PIP", "TZP", "PHN", "IMR", "MEV"))
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S S CEC I
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN S CEC I
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA-S R PEN, PHN R from flowchart: when OXA < 20 or PEN > 0.06
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae PEN R PHN R from flowchart: when OXA < 20 or PEN > 0.06
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP S AMX, AMC, SAM, PIP, TZP S
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP I AMX, AMC, SAM, PIP, TZP I
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae AMP R AMX, AMC, SAM, PIP, TZP R
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S S MFX S does not explicitly state that it is for other fluoroquinolones
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S S LVX I does not explicitly state that it is for other fluoroquinolones
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR-S R MFX, LVX R does not explicitly state that it is for other fluoroquinolones
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY S AZM, CLR, RXT S
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae ERY R AZM, CLR, RXT R
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY-S S DOX, MNO S
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Breakpoints 13.1 Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY-S R DOX, MNO R
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Breakpoints 13.1 Vibrio spp. genus is Vibrio PEF-S S CIP, LVX S
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Breakpoints 13.1 Vibrio spp. genus is Vibrio PEF-S I CIP, LVX I
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Breakpoints 13.1 Vibrio spp. genus is Vibrio PEF-S R CIP, LVX R
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Breakpoints 13.1 Vibrio spp. genus is Vibrio ERY S AZM S
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Breakpoints 13.1 Vibrio spp. genus is Vibrio ERY I AZM I
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Breakpoints 13.1 Vibrio spp. genus is Vibrio ERY R AZM R
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Breakpoints 13.1 Vibrio spp. genus is Vibrio TCY-S S DOX S
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Breakpoints 13.1 Vibrio spp. genus is Vibrio TCY-S I DOX I
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Breakpoints 13.1 Vibrio spp. genus is Vibrio TCY-S R DOX R
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Breakpoints 13.1 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN-S S AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PIP, SAM, TZP S will be expanded in eucast_rules()
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Breakpoints 13.1 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN-S R AMC, AMP, AMX, CPD, CPT, CRO, CTX, CXM, DOR, ETP, FEP, IMR, IPM, MEM, MEV, OXA, PEN, PIP, SAM, TZP R will be expanded in eucast_rules()
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Breakpoints 13.1 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP S AMX, AMC, SAM, PIP, TZP S will be expanded in eucast_rules()
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Breakpoints 13.1 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP I AMX, AMC, SAM, PIP, TZP I will be expanded in eucast_rules()
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Breakpoints 13.1 Viridans group streptococci genus_species one_of Viridans Group Streptococcus (VGS) AMP R AMX, AMC, SAM, PIP, TZP R will be expanded in eucast_rules()
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Breakpoints Anaerobic bacteria genus is Prevotella PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2023" & mo_genus(clinical_breakpoints$mo) == "Prevotella")]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints Anaerobic bacteria genus is Prevotella AMP S AMX S
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Breakpoints Anaerobic bacteria genus is Prevotella AMP I AMX I
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Breakpoints Anaerobic bacteria genus is Prevotella AMP R AMX R
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Breakpoints Anaerobic bacteria genus_species is Fusobacterium necrophorum PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2023" & clinical_breakpoints$mo == as.mo("Fusobacterium necrophorum"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP S AMX S
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Breakpoints Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP I AMX I
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Breakpoints Anaerobic bacteria genus_species is Fusobacterium necrophorum AMP R AMX R
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Breakpoints Anaerobic bacteria genus_species is Clostridium perfringens PEN S AMC, AMP, AMX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2023" & clinical_breakpoints$mo == as.mo("Fusobacterium necrophorum"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM"); sort(x[x %in% betalactams()])
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Breakpoints Anaerobic bacteria genus_species is Clostridium perfringens AMP S AMX S
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Breakpoints Anaerobic bacteria genus_species is Clostridium perfringens AMP I AMX I
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Breakpoints Anaerobic bacteria genus_species is Clostridium perfringens AMP R AMX R
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Breakpoints Anaerobic bacteria genus_species is Cutibacterium acnes PEN S AMC, AMP, AMX, CRO, CTX, ETP, IPM, MEM, PEN, PIP, SAM, TZP S x <- c(unique(clinical_breakpoints$ab[which(clinical_breakpoints$guideline == "EUCAST 2023" & clinical_breakpoints$mo == as.mo("Cutibacterium acnes"))]), "AMP", "SAM", "AMX", "AMC", "PIP", "ETP", "IPM", "TZP", "CTX", "CRO"); sort(x[x %in% betalactams()])
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Breakpoints Anaerobic bacteria genus_species is Cutibacterium acnes AMP S AMX S
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Breakpoints Anaerobic bacteria genus_species is Cutibacterium acnes AMP I AMX I
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Breakpoints Anaerobic bacteria genus_species is Cutibacterium acnes AMP R AMX R
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Breakpoints Anaerobic bacteria genus_species is Cutibacterium acnes CTX S CRO S
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Breakpoints Anaerobic bacteria genus_species is Cutibacterium acnes CTX I CRO I
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Breakpoints Anaerobic bacteria genus_species is Cutibacterium acnes CTX R CRO R
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Breakpoints Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I AMX S
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Breakpoints Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R AMX R
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Breakpoints Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN S CTX S
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Breakpoints Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I CTX I
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Breakpoints Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R CTX R
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Breakpoints Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN I MEM S
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Breakpoints Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans PEN R MEM R
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Breakpoints Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY S DOX S
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Breakpoints Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY I DOX I
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Breakpoints Corynebacterium diphtheriae/ulcerans genus_species one_of Corynebacterium diphtheriae, Corynebacterium ulcerans TCY R DOX R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. order is Enterobacterales PEN, glycopeptides, lipoglycopeptides, FUS, macrolides, lincosamides, streptogramins, RIF, oxazolidinones R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species one_of Citrobacter koseri, Citrobacter amalonaticus AMP, AMX, TIC R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Citrobacter freundii AMP, AMX, AMC, SAM, CZO, CEP, LEX, CFR, FOX R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species one_of Enterobacter cloacae complex AMP, AMX, AMC, SAM, CZO, CEP, LEX, CFR, FOX R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Escherichia hermannii AMP, AMX, TIC R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Hafnia alvei AMP, AMX, PLB, COL R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Klebsiella aerogenes AMP, AMX, AMC, SAM, CZO, CEP, LEX, CFR, FOX R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species one_of Klebsiella pneumoniae complex AMX, AMP, TIC R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Klebsiella oxytoca AMX, AMP, TIC R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Leclercia adecarboxylata FOS R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Morganella morganii AMP, AMX, AMC, SAM, CZO, CEP, LEX, CFR, tetracyclines, PLB, COL, NIT R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Plesiomonas shigelloides AMX, AMP, SAM R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Proteus mirabilis tetracyclines, PLB, COL, NIT R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Proteus penneri AMP, AMX, CZO, CEP, LEX, CFR, CXM, tetracyclines, PLB, COL, NIT R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Proteus vulgaris AMP, AMX, CZO, CEP, LEX, CFR, CXM, tetracyclines, PLB, COL, NIT R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Providencia rettgeri AMP, AMX, AMC, SAM, CZO, CEP, LEX, CFR, tetracyclines, PLB, COL, NIT R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Providencia stuartii AMP, AMX, AMC, SAM, CZO, CEP, LEX, CFR, tetracyclines, PLB, COL, NIT R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus is Raoultella AMP, AMX, TIC R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Serratia marcescens AMP, AMX, AMC, SAM, CZO, CEP, LEX, CFR, FOX, CXM, PLB, COL, NIT R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Yersinia enterocolitica AMP, AMX, AMC, SAM, TIC, CZO, CEP, LEX, CFR, FOX R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Yersinia pseudotuberculosis PLB, COL R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Aeromonas hydrophila AMP, AMX, SAM R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Aeromonas veronii AMP, AMX, SAM, TIC R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Aeromonas dhakensis AMP, AMX, SAM, FOX R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Aeromonas caviae AMP, AMX, SAM R
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Expected phenotypes 1.2 Table 1: Expected resistant phenotype in Enterobacterales and Aeromonas spp. genus_species is Aeromonas jandaei AMP, AMX, SAM, TIC R
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Expected phenotypes 1.2 Table 2: Expected resistant phenotype in non-fermentative gram-negative bacteria genus one_of Acinetobacter, Achromobacter, Burkholderia, Elizabethkingia, Elizabethkingia, Ochrobactrum, Pseudomonas, Stenotrophomonas, Chryseobacterium PEN, cephalosporins_1st, cephalosporins_2nd, glycopeptides, lipoglycopeptides, FUS, macrolides, lincosamides, streptogramins, RIF, oxazolidinones R
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Expected phenotypes 1.2 Table 2: Expected resistant phenotype in non-fermentative gram-negative bacteria genus_species one_of Acinetobacter baumannii, Acinetobacter pittii, Acinetobacter nosocomialis AMP, AMX, AMC, CTX, CRO, ATM, ETP, TMP, FOS, TCY, DOX R
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Expected phenotypes 1.2 Table 2: Expected resistant phenotype in non-fermentative gram-negative bacteria genus_species is Achromobacter xylosoxidans AMP, AMX, CTX, CRO, ATM, ETP R
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Expected phenotypes 1.2 Table 2: Expected resistant phenotype in non-fermentative gram-negative bacteria genus_species one_of Burkholderia cepacia complex AMP, AMX, AMC, SAM, TIC, TCC, PIP, TZP, CTX, CRO, ATM, ETP, CIP, CHL, aminoglycosides, TMP, FOS, PLB, COL R
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Expected phenotypes 1.2 Table 2: Expected resistant phenotype in non-fermentative gram-negative bacteria genus_species is Elizabethkingia meningoseptica AMP, AMX, AMC, SAM, TIC, TCC, CTX, CRO, CAZ, FEP, ATM, ETP, IPM, MEM, PLB, COL R
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Expected phenotypes 1.2 Table 2: Expected resistant phenotype in non-fermentative gram-negative bacteria genus_species is Elizabethkingia anophelis AMP, AMX, AMC, SAM, TIC, TCC, CTX, CRO, CAZ, FEP, ATM, ETP, IPM, MEM R
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Expected phenotypes 1.2 Table 2: Expected resistant phenotype in non-fermentative gram-negative bacteria genus_species is Ochrobactrum anthropi AMP, AMX, AMC, SAM, TIC, TCC, CTX, CRO, CAZ, FEP, ATM, ETP R
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Expected phenotypes 1.2 Table 2: Expected resistant phenotype in non-fermentative gram-negative bacteria genus_species is Pseudomonas aeruginosa AMP, AMX, AMC, SAM, CTX, CRO, ETP, CHL, TMP, KAN, NEO, tetracyclines, TGC R
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Expected phenotypes 1.2 Table 2: Expected resistant phenotype in non-fermentative gram-negative bacteria genus_species is Stenotrophomonas maltophilia AMP, AMX, AMC, SAM, TIC, PIP, TZP, CTX, CRO, ATM, ETP, IPM, MEM, aminoglycosides, TMP, FOS, TCY R
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Expected phenotypes 1.2 Table 2: Expected resistant phenotype in non-fermentative gram-negative bacteria genus is Chryseobacterium AMP, AMX, AMC, SAM, TIC, TCC, CTX, CRO, CAZ, ATM, ETP, IPM, MEM, aminoglycosides, PLB, COL R
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Expected phenotypes 1.2 Table 3: Expected resistant phenotype in other gram-negative bacteria genus one_of Haemophilus, Moraxella, Neisseria, Campylobacter glycopeptides, lipoglycopeptides, lincosamides, oxazolidinones R
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Expected phenotypes 1.2 Table 3: Expected resistant phenotype in other gram-negative bacteria genus_species is Haemophilus influenzae FUS, streptogramins R
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Expected phenotypes 1.2 Table 3: Expected resistant phenotype in other gram-negative bacteria genus_species is Moraxella catarrhalis TMP R
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Expected phenotypes 1.2 Table 3: Expected resistant phenotype in other gram-negative bacteria genus is Neisseria TMP R
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Expected phenotypes 1.2 Table 3: Expected resistant phenotype in other gram-negative bacteria genus_species is Campylobacter fetus FUS, streptogramins, TMP, NAL R
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Expected phenotypes 1.2 Table 3: Expected resistant phenotype in other gram-negative bacteria genus_species one_of Campylobacter jejuni, Campylobacter coli FUS, streptogramins, TMP R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria gramstain is Gram-positive ATM, TEM, PLB, COL, NAL R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus_species is Staphylococcus saprophyticus FUS, CAZ, FOS, NOV R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus_species is Staphylococcus cohnii CAZ, NOV R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus_species is Staphylococcus xylosus CAZ, NOV R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus_species is Staphylococcus capitis CAZ, FOS R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus_species one_of Coagulase-negative Staphylococcus (CoNS), Staphylococcus aureus CAZ R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus is Streptococcus FUS, CAZ, aminoglycosides R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus_species is Enterococcus faecalis FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, CLI, QDA, sulfonamides R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus_species one_of Enterococcus gallinarum, Enterococcus casseliflavus FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, CLI, QDA, VAN, sulfonamides R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus_species is Enterococcus faecium FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, sulfonamides R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus is Corynebacterium FOS R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus_species is Listeria monocytogenes CAZ, cephalosporins_except_CAZ R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus one_of Leuconostoc, Pediococcus VAN, FOS R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria genus_species is Lactobacillus casei VAN, FOS R
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Expected phenotypes 1.2 Table 4: Expected resistant phenotype in gram-positive bacteria fullname is Lactobacillus casei rhamnosus VAN, FOS R
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Expected phenotypes 1.2 Table 5: Expected resistant phenotype in anaerobes genus_species one_of Clostridium ramosum, Clostridium innocuum VAN R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) order is Enterobacterales PEN, glycopeptides_except_lipo, FUS, macrolides, LIN, streptogramins, RIF, DAP, LNZ R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) fullname like ^Citrobacter (koseri|amalonaticus|sedlakii|farmeri|rodentium) aminopenicillins, TIC R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) fullname like ^Citrobacter (freundii|braakii|murliniae|werkmanii|youngae) aminopenicillins, AMC, CZO, FOX R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Enterobacter cloacae aminopenicillins, AMC, CZO, FOX R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Klebsiella aerogenes aminopenicillins, AMC, CZO, FOX R originally Enterobacter aerogenes, but was renamed to Klebsiella aerogenes
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Escherichia hermannii aminopenicillins, TIC R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Hafnia alvei aminopenicillins, AMC, CZO, FOX R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus is Klebsiella aminopenicillins, TIC R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Morganella morganii aminopenicillins, AMC, CZO, DOX, MNO, TCY, polymyxins, NIT R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Proteus mirabilis DOX, MNO, TCY, TGC, polymyxins, NIT R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Proteus penneri aminopenicillins, CZO, CXM, DOX, MNO, TCY, TGC, polymyxins, NIT R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Proteus vulgaris aminopenicillins, CZO, CXM, DOX, MNO, TCY, TGC, polymyxins, NIT R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Providencia rettgeri aminopenicillins, AMC, CZO, CXM, DOX, MNO, TCY, TGC, polymyxins, NIT R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Providencia stuartii aminopenicillins, AMC, CZO, CXM, DOX, MNO, TCY, TGC, polymyxins, NIT R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus is Raoultella aminopenicillins, TIC R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Serratia marcescens aminopenicillins, AMC, CZO, FOX, CXM, DOX, TCY, polymyxins, NIT R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Yersinia enterocolitica aminopenicillins, AMC, TIC, CZO, FOX R
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Expert Rules 3.1 Table 01: Intrinsic resistance in Enterobacterales (at the time: Enterobacteriaceae) genus_species is Yersinia pseudotuberculosis PLB, COL R
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Expert Rules 3.1 Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria genus one_of Achromobacter, Acinetobacter, Alcaligenes, Bordetella, Burkholderia, Elizabethkingia, Flavobacterium, Ochrobactrum, Pseudomonas, Stenotrophomonas PEN, FOX, CXM, glycopeptides_except_lipo, FUS, macrolides, LIN, streptogramins, RIF, DAP, LNZ R
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Expert Rules 3.1 Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria genus_species is Acinetobacter baumannii aminopenicillins, AMC, CZO, CTX, CRO, ATM, ETP, TMP, FOS, DOX, TCY R
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Expert Rules 3.1 Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria genus_species is Acinetobacter pittii aminopenicillins, AMC, CZO, CTX, CRO, ATM, ETP, TMP, FOS, DOX, TCY R
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Expert Rules 3.1 Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria genus_species is Acinetobacter nosocomialis aminopenicillins, AMC, CZO, CTX, CRO, ATM, ETP, TMP, FOS, DOX, TCY R
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Expert Rules 3.1 Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria genus_species is Acinetobacter calcoaceticus aminopenicillins, AMC, CZO, CTX, CRO, ATM, ETP, TMP, FOS, DOX, TCY R
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Expert Rules 3.1 Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria genus_species is Achromobacter xylosoxidans aminopenicillins, CZO, CTX, CRO, ETP R
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Expert Rules 3.1 Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria fullname like ^Burkholderia (ambifaria|anthina|arboris|cepacia|cenocepacia|contaminans|diffusa|dolosa|lata|latens|metallica|multivorans|paludis|pseudomultivorans|pyrrocinia|pseudomultivorans|seminalis|stabilis|stagnalis|territorii|ubonensis|vietnamiensis) aminopenicillins, AMC, TIC, PIP, TZP, CZO, CTX, CRO, ATM, ETP, CIP, CHL, aminoglycosides, TMP, FOS, polymyxins R
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Expert Rules 3.1 Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria genus_species is Elizabethkingia meningoseptica aminopenicillins, AMC, TIC, CZO, CTX, CRO, CAZ, FEP, ATM, ETP, IPM, MEM, polymyxins R
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Expert Rules 3.1 Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria genus_species is Brucella anthropi aminopenicillins, AMC, TIC, PIP, TZP, CZO, CTX, CRO, CAZ, FEP, ATM, ETP R
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Expert Rules 3.1 Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria genus_species is Pseudomonas aeruginosa aminopenicillins, AMC, CZO, CTX, CRO, ETP, CHL, KAN, NEO, TMP, SXT, DOX, MNO, TCY, TGC R
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Expert Rules 3.1 Table 02: Intrinsic resistance in non-fermentative Gram-negative bacteria genus_species is Stenotrophomonas maltophilia aminopenicillins, AMC, TIC, PIP, TZP, CZO, CTX, CRO, ATM, ETP, IPM, MEM, aminoglycosides, TMP, FOS, TCY R
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Expert Rules 3.1 Table 03: Intrinsic resistance in other Gram-negative bacteria genus one_of Haemophilus, Moraxella, Neisseria, Campylobacter glycopeptides_except_lipo, LIN, DAP, LNZ R
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Expert Rules 3.1 Table 03: Intrinsic resistance in other Gram-negative bacteria genus_species is Haemophilus influenzae FUS, streptogramins R
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Expert Rules 3.1 Table 03: Intrinsic resistance in other Gram-negative bacteria genus_species is Moraxella catarrhalis TMP R
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Expert Rules 3.1 Table 03: Intrinsic resistance in other Gram-negative bacteria genus is Neisseria TMP R
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Expert Rules 3.1 Table 03: Intrinsic resistance in other Gram-negative bacteria genus_species is Campylobacter fetus FUS, streptogramins, TMP, NAL R
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Expert Rules 3.1 Table 03: Intrinsic resistance in other Gram-negative bacteria genus_species is Campylobacter jejuni FUS, streptogramins, TMP R
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Expert Rules 3.1 Table 03: Intrinsic resistance in other Gram-negative bacteria genus_species is Campylobacter coli FUS, streptogramins, TMP R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria gramstain is Gram-positive ATM, polymyxins, NAL R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Staphylococcus saprophyticus FUS, CAZ, FOS, NOV R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Staphylococcus cohnii CAZ, NOV R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Staphylococcus xylosus CAZ, NOV R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Staphylococcus capitis CAZ, FOS R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Staphylococcus aureus CAZ R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Staphylococcus epidermidis CAZ R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Staphylococcus coagulase-negative CAZ R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Staphylococcus hominis CAZ R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Staphylococcus haemolyticus CAZ R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Staphylococcus intermedius CAZ R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Staphylococcus pseudintermedius CAZ R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus is Streptococcus FUS, CAZ, aminoglycosides R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Enterococcus faecalis FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, CLI, QDA, TMP, SXT R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Enterococcus gallinarum FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, CLI, QDA, VAN, TMP, SXT R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Enterococcus casseliflavus FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, CLI, QDA, VAN, TMP, SXT R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Enterococcus faecium FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, TMP, SXT R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus is Corynebacterium FOS R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Listeria monocytogenes cephalosporins R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus one_of Leuconostoc, Pediococcus glycopeptides_except_lipo R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus is Lactobacillus glycopeptides_except_lipo R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Clostridium ramosum VAN R
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Expert Rules 3.1 Table 04: Intrinsic resistance in Gram-positive bacteria genus_species is Clostridium innocuum VAN R
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Expert Rules 3.1 Table 08: Interpretive rules for B-lactam agents and Gram-positive cocci genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S aminopenicillins, cephalosporins_except_CAZ, carbapenems S
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Expert Rules 3.1 Table 08: Interpretive rules for B-lactam agents and Gram-positive cocci genus is Enterococcus AMP R ureidopenicillins, carbapenems R
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Expert Rules 3.1 Table 08: Interpretive rules for B-lactam agents and Gram-positive cocci genus is Enterococcus AMX R ureidopenicillins, carbapenems R
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Expert Rules 3.1 Table 09: Interpretive rules for B-lactam agents and Gram-negative rods (at the time: Enterobacteriaceae) order is Enterobacterales TIC, PIP R, S PIP R
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Expert Rules 3.1 Table 11: Interpretive rules for macrolides, lincosamides, and streptogramins genus like .* ERY S AZM, CLR S
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Expert Rules 3.1 Table 11: Interpretive rules for macrolides, lincosamides, and streptogramins genus like .* ERY I AZM, CLR I
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Expert Rules 3.1 Table 11: Interpretive rules for macrolides, lincosamides, and streptogramins genus like .* ERY R AZM, CLR R
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Expert Rules 3.1 Table 12: Interpretive rules for aminoglycosides genus is Staphylococcus TOB R KAN, AMK R
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Expert Rules 3.1 Table 12: Interpretive rules for aminoglycosides genus is Staphylococcus GEN R aminoglycosides R
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Expert Rules 3.1 Table 12: Interpretive rules for aminoglycosides order is Enterobacterales GEN, TOB I, S GEN R
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Expert Rules 3.1 Table 12: Interpretive rules for aminoglycosides order is Enterobacterales GEN, TOB R, I TOB R
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Expert Rules 3.1 Table 13: Interpretive rules for quinolones genus is Staphylococcus MFX R fluoroquinolones R
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Expert Rules 3.1 Table 13: Interpretive rules for quinolones genus_species is Streptococcus pneumoniae MFX R fluoroquinolones R
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Expert Rules 3.1 Table 13: Interpretive rules for quinolones order is Enterobacterales CIP R fluoroquinolones R
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Expert Rules 3.1 Table 13: Interpretive rules for quinolones genus_species is Neisseria gonorrhoeae CIP R fluoroquinolones R
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Expert Rules 3.2 Expert Rules on Campylobacter genus is Campylobacter ERY S CLR, AZM S
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Expert Rules 3.2 Expert Rules on Campylobacter genus_species is Campylobacter ERY R CLR, AZM R
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Expert Rules 3.2 Expert Rules on Enterobacterales genus_species one_of Escherichia coli, Proteus mirabilis AMP R PIP R
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Expert Rules 3.2 Expert Rules on Enterobacterales genus_species one_of Escherichia coli, Proteus mirabilis AMP S PIP S
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Expert Rules 3.2 Expert Rules on Enterobacterales fullname like ^(Klebsiella(?! aerogenes)|Raoultella) PIP R
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Expert Rules 3.2 Expert Rules on Enterobacterales fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter freundii|Serratia|Morganella morganii|Hafnia alvei|Providencia) CXM S CXM, cephalosporins_2nd R
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Expert Rules 3.2 Expert Rules on Enterobacterales genus one_of Arsenophonus, Biostraticola, Brenneria, Buchnera, Budvicia, Buttiauxella, Cedecea, Citrobacter, Cosenzaea, Cronobacter, Dickeya, Edwardsiella, Enterobacillus, Enterobacter, Erwinia, Escherichia, Ewingella, Franconibacter, Gibbsiella, Hafnia, Izhakiella, Klebsiella, Kluyvera, Kosakonia, Leclercia, Lelliottia, Leminorella, Lonsdalea, Mangrovibacter, Mixta, Moellerella, Morganella, Obesumbacterium, Pantoea, Pectobacterium, Phaseolibacter, Photorhabdus, Phytobacter, Plesiomonas, Pluralibacter, Pragia, Proteus, Providencia, Pseudescherichia, Pseudocitrobacter, Rahnella, Raoultella, Rosenbergiella, Rouxiella, Saccharobacter, Samsonia, Serratia, Shigella, Shimwellia, Siccibacter, Sodalis, Tatumella, Thorsellia, Trabulsiella, Wigglesworthia, Xenorhabdus, Yersinia, Yokenella CIP R fluoroquinolones R This is Enterobacterales except Salmonella spp.
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Expert Rules 3.2 Expert Rules on Enterobacterales fullname like ^(Serratia|Providencia|Morganella morganii) TGC R
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Expert Rules 3.2 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CTX S CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.2 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CRO S CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.2 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CAZ S CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.2 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CTX I CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.2 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CRO I CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.2 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CAZ I CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.2 Expert Rules on Enterococcus fullname like ^Enterococcus (faecalis|faecium) AMP R ureidopenicillins, IPM R
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Expert Rules 3.2 Expert Rules on Enterococcus fullname like ^Enterococcus (faecalis|faecium) AMX R ureidopenicillins, IPM R
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Expert Rules 3.2 Expert Rules on Enterococcus genus is Enterococcus NOR S CIP, LVX S
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Expert Rules 3.2 Expert Rules on Enterococcus genus is Enterococcus VAN S lipoglycopeptides S
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Expert Rules 3.2 Expert Rules on Enterococcus genus_species is Enterococcus faecium CLI R
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Expert Rules 3.2 Expert Rules on Haemophilus influenzae genus_species is Haemophilus influenzae PEN S betalactams S
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Expert Rules 3.2 Expert Rules on Haemophilus influenzae genus_species is Haemophilus influenzae NAL S fluoroquinolones S
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Expert Rules 3.2 Expert Rules on Haemophilus influenzae genus_species is Haemophilus influenzae NAL R CIP, LVX, MFX R
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Expert Rules 3.2 Expert Rules on Haemophilus influenzae genus_species is Haemophilus influenzae TCY S DOX, MNO S
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Expert Rules 3.2 Expert Rules on Haemophilus influenzae genus_species is Haemophilus influenzae TCY R DOX, MNO R
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Expert Rules 3.2 Expert Rules on Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL S fluoroquinolones S
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Expert Rules 3.2 Expert Rules on Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL R fluoroquinolones R
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Expert Rules 3.2 Expert Rules on Salmonella genus is Salmonella cephalosporins_2nd R
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Expert Rules 3.2 Expert Rules on Salmonella genus is Salmonella aminoglycosides R
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Expert Rules 3.2 Expert Rules on Salmonella genus is Salmonella PEF R CIP R
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Expert Rules 3.2 Expert Rules on Staphylococcus genus_species is Staphylococcus aureus FOX R betalactams R
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Expert Rules 3.2 Expert Rules on Staphylococcus genus_species is Staphylococcus aureus FOX S betalactams_with_inhibitor S
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Expert Rules 3.2 Expert Rules on Staphylococcus genus_species one_of Staphylococcus aureus, Staphylococcus lugdunensis PEN R AMP, AMX, AZL, BAM, CRB, CRN, EPC, HET, MEC, MEZ, MTM, PIP, PME, PVM, SBC, TAL, TEM, TIC R all penicillins without beta-lactamse inhibitor
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Expert Rules 3.2 Expert Rules on Staphylococcus genus is Staphylococcus ERY, CLI S macrolides, lincosamides S
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Expert Rules 3.2 Expert Rules on Staphylococcus genus is Staphylococcus NOR S CIP, LVX, MFX, OFX S
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Expert Rules 3.2 Expert Rules on Staphylococcus genus is Staphylococcus LVX R fluoroquinolones R
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Expert Rules 3.2 Expert Rules on Staphylococcus genus is Staphylococcus MFX R fluoroquinolones R
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Expert Rules 3.2 Expert Rules on Staphylococcus genus is Staphylococcus TCY S DOX, MNO, TGC S
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Expert Rules 3.2 Expert Rules on Staphylococcus genus is Staphylococcus TCY R DOX, MNO R
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Expert Rules 3.2 Expert Rules on Staphylococcus genus is Staphylococcus VAN S lipoglycopeptides S
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Expert Rules 3.2 Expert Rules on Staphylococcus genus is Staphylococcus LNZ S TZD S
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Expert Rules 3.2 Expert Rules on Streptococcus A, B, C and G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S aminopenicillins, cephalosporins, carbapenems S
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Expert Rules 3.2 Expert Rules on Streptococcus A, B, C and G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR S LVX, MFX S
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Expert Rules 3.2 Expert Rules on Streptococcus A, B, C and G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR R LVX, MFX R
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Expert Rules 3.2 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA S PHN, PEN, aminopenicillins, cephalosporins_except_CAZ, carbapenems S
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Expert Rules 3.2 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR S LVX, MFX S
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Expert Rules 3.2 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR R LVX, MFX R
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Expert Rules 3.2 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae LVX R fluoroquinolones R
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Expert Rules 3.2 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae MFX R fluoroquinolones R
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Expert Rules 3.2 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY S DOX, MNO S
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Expert Rules 3.2 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY R DOX, MNO R
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Expert Rules 3.2 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae VAN S lipoglycopeptides S
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Expert Rules 3.2 Expert Rules on Viridans Group Streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN S aminopenicillins, CTX, CRO S
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. order is Enterobacterales PEN, glycopeptides_except_lipo, lipoglycopeptides, FUS, macrolides, lincosamides, streptogramins, RIF, oxazolidinones R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. fullname like ^Citrobacter (koseri|amalonaticus|sedlakii|farmeri|rodentium) aminopenicillins, TIC R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. fullname like ^Citrobacter (freundii|braakii|murliniae|werkmanii|youngae) aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, FOX R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Enterobacter cloacae aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, FOX R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Escherichia hermannii aminopenicillins, TIC R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Hafnia alvei aminopenicillins, AMC, SAM, CXM, CZO, CEP, LEX, CFR, FOX, polymyxins R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Klebsiella aerogenes aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, FOX R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Klebsiella oxytoca aminopenicillins, TIC R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. fullname like ^Klebsiella( pneumoniae| quasipneumoniae| variicola)? aminopenicillins, TIC R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Leclercia adecarboxylata FOS R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Morganella morganii aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, DOX, MNO, TCY, polymyxins, NIT R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Plesiomonas shigelloides aminopenicillins, AMC, SAM R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Proteus mirabilis DOX, MNO, TCY, TGC, polymyxins, NIT R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Proteus penneri aminopenicillins, CZO, CEP, LEX, CFR, CXM, DOX, MNO, TCY, TGC, polymyxins, NIT R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Proteus vulgaris aminopenicillins, CZO, CEP, LEX, CFR, CXM, DOX, MNO, TCY, TGC, polymyxins, NIT R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Providencia rettgeri aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, DOX, MNO, TCY, polymyxins, NIT R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Providencia stuartii aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, DOX, MNO, TCY, polymyxins, NIT R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus is Raoultella aminopenicillins, TIC R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Serratia marcescens aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, FOX, CXM, DOX, TCY, polymyxins, NIT R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Yersinia enterocolitica aminopenicillins, AMC, SAM, TIC, CZO, CEP, LEX, CFR, FOX R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Yersinia pseudotuberculosis polymyxins R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Aeromonas hydrophila aminopenicillins, AMC, SAM, FOX R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Aeromonas veronii aminopenicillins, AMC, SAM, FOX R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Aeromonas dhakensis aminopenicillins, AMC, SAM, FOX R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Aeromonas caviae aminopenicillins, AMC, SAM, FOX R
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Expert Rules 3.2 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Aeromonas jandaei aminopenicillins, AMC, SAM, TIC, CZO, CEP, LEX, CFR, FOX R
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Expert Rules 3.2 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus one_of Achromobacter, Acinetobacter, Alcaligenes, Bordetella, Burkholderia, Elizabethkingia, Flavobacterium, Ochrobactrum, Pseudomonas, Stenotrophomonas PEN, cephalosporins_1st, cephalosporins_2nd, glycopeptides_except_lipo, lipoglycopeptides, FUS, macrolides, lincosamides, streptogramins, RIF, oxazolidinones R
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Expert Rules 3.2 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria fullname like ^Acinetobacter (baumannii|pittii|nosocomialis) aminopenicillins, AMC, CRO, CTX, ATM, ETP, TMP, FOS, DOX, TCY R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.2 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus is Acinetobacter DOX, TCY R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.2 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus_species is Achromobacter xylosoxidans aminopenicillins, CRO, CTX, ETP R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.2 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria fullname like ^Burkholderia (ambifaria|anthina|arboris|cepacia|cenocepacia|contaminans|diffusa|dolosa|lata|latens|metallica|multivorans|paludis|pseudomultivorans|pyrrocinia|pseudomultivorans|seminalis|stabilis|stagnalis|territorii|ubonensis|vietnamiensis) aminopenicillins, AMC, SAM, TIC, TCC, PIP, TZP, CRO, CTX, ATM, ETP, CIP, CHL, aminoglycosides, TMP, FOS, polymyxins R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.2 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus_species is Elizabethkingia meningoseptica aminopenicillins, AMC, SAM, TIC, TCC, PIP, CZO, CTX, CRO, CAZ, FEP, ATM, ETP, IPM, MEM, polymyxins R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.2 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus_species is Brucella anthropi aminopenicillins, AMC, SAM, TIC, TCC, PIP, TZP, CZO, CTX, CRO, CAZ, FEP, ATM, ETP R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.2 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus_species is Pseudomonas aeruginosa aminopenicillins, AMC, SAM, CTX, CRO, ETP, CHL, KAN, NEO, TMP, DOX, MNO, TCY, TGC R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.2 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus_species is Stenotrophomonas maltophilia aminopenicillins, AMC, SAM, TIC, PIP, TZP, CRO, CTX, ATM, ETP, IPM, MEM, aminoglycosides, TMP, FOS, TCY R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.2 Table 3: Intrinsic resistance in other gram-negative bacteria genus_species is Haemophilus influenzae FUS, streptogramins, glycopeptides_except_lipo, lipoglycopeptides, lincosamides, oxazolidinones R
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Expert Rules 3.2 Table 3: Intrinsic resistance in other gram-negative bacteria genus_species is Moraxella catarrhalis TMP, glycopeptides_except_lipo, lipoglycopeptides, lincosamides, oxazolidinones R
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Expert Rules 3.2 Table 3: Intrinsic resistance in other gram-negative bacteria genus is Neisseria TMP, glycopeptides_except_lipo, lipoglycopeptides, lincosamides, oxazolidinones R
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Expert Rules 3.2 Table 3: Intrinsic resistance in other gram-negative bacteria genus_species is Campylobacter fetus FUS, streptogramins, TMP, NAL, glycopeptides_except_lipo, lipoglycopeptides, lincosamides, oxazolidinones R
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Expert Rules 3.2 Table 3: Intrinsic resistance in other gram-negative bacteria fullname like ^Campylobacter (jejuni|coli) FUS, streptogramins, TMP, glycopeptides_except_lipo, lipoglycopeptides, lincosamides, oxazolidinones R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria gramstain is Gram-positive ATM, TEM, polymyxins, NAL R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus saprophyticus FUS, CAZ, FOS, NOV R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus cohnii CAZ, NOV R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus xylosus CAZ, NOV R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus capitis CAZ, FOS R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus aureus CAZ R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus coagulase-negative CAZ R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus is Streptococcus FUS, CAZ, aminoglycosides R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecalis FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, CLI, QDA, SDI, SUD, SDM, SLF, SLF1, SLF2, SZO, SLF3, SLF4, SMX, SLF5, SLF6, SLF7, SLF8, SLF9, SLF10, SLF11, SLF12, SUT, SLF13 R These last ones are all true sulfonamides
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecalis TMP S SXT, SLT1, SLT2, SLT3, SLT4, SLT5 S Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecalis TMP I SXT, SLT1, SLT2, SLT3, SLT4, SLT5 I Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecalis TMP R SXT, SLT1, SLT2, SLT3, SLT4, SLT5 R Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria fullname like ^Enterococcus (gallinarum|casseliflavus) FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, CLI, QDA, VAN, SDI, SUD, SDM, SLF, SLF1, SLF2, SZO, SLF3, SLF4, SMX, SLF5, SLF6, SLF7, SLF8, SLF9, SLF10, SLF11, SLF12, SUT, SLF13 R These last ones are all true sulfonamides
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria fullname like ^Enterococcus (gallinarum|casseliflavus) TMP S SXT, SLT1, SLT2, SLT3, SLT4, SLT5 S Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria fullname like ^Enterococcus (gallinarum|casseliflavus) TMP I SXT, SLT1, SLT2, SLT3, SLT4, SLT5 I Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria fullname like ^Enterococcus (gallinarum|casseliflavus) TMP R SXT, SLT1, SLT2, SLT3, SLT4, SLT5 R Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecium FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, SDI, SUD, SDM, SLF, SLF1, SLF2, SZO, SLF3, SLF4, SMX, SLF5, SLF6, SLF7, SLF8, SLF9, SLF10, SLF11, SLF12, SUT, SLF13 R These last ones are all true sulfonamides
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecium TMP S SXT, SLT1, SLT2, SLT3, SLT4, SLT5 S Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecium TMP I SXT, SLT1, SLT2, SLT3, SLT4, SLT5 I Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecium TMP R SXT, SLT1, SLT2, SLT3, SLT4, SLT5 R Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus is Corynebacterium FOS R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Listeria monocytogenes CAZ, cephalosporins_except_CAZ R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus one_of Leuconostoc, Pediococcus VAN, TEC R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria genus is Lactobacillus VAN, TEC R
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Expert Rules 3.2 Table 4: Intrinsic resistance in gram-positive bacteria fullname like ^Clostridium (ramosum|innocuum) VAN R
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Expert Rules 3.3 Expert Rules on Campylobacter genus is Campylobacter ERY S CLR, AZM S
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Expert Rules 3.3 Expert Rules on Campylobacter genus_species is Campylobacter ERY R CLR, AZM R
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Expert Rules 3.3 Expert Rules on Enterobacterales genus_species one_of Escherichia coli, Proteus mirabilis AMP R PIP R
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Expert Rules 3.3 Expert Rules on Enterobacterales genus_species one_of Escherichia coli, Proteus mirabilis AMP S PIP S
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Expert Rules 3.3 Expert Rules on Enterobacterales fullname like ^(Klebsiella(?! aerogenes)|Raoultella) PIP R
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Expert Rules 3.3 Expert Rules on Enterobacterales fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter freundii|Serratia|Morganella morganii|Hafnia alvei|Providencia) CXM S CXM, cephalosporins_2nd R
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Expert Rules 3.3 Expert Rules on Enterobacterales genus one_of Arsenophonus, Biostraticola, Brenneria, Buchnera, Budvicia, Buttiauxella, Cedecea, Citrobacter, Cosenzaea, Cronobacter, Dickeya, Edwardsiella, Enterobacillus, Enterobacter, Erwinia, Escherichia, Ewingella, Franconibacter, Gibbsiella, Hafnia, Izhakiella, Klebsiella, Kluyvera, Kosakonia, Leclercia, Lelliottia, Leminorella, Lonsdalea, Mangrovibacter, Mixta, Moellerella, Morganella, Obesumbacterium, Pantoea, Pectobacterium, Phaseolibacter, Photorhabdus, Phytobacter, Plesiomonas, Pluralibacter, Pragia, Proteus, Providencia, Pseudescherichia, Pseudocitrobacter, Rahnella, Raoultella, Rosenbergiella, Rouxiella, Saccharobacter, Samsonia, Serratia, Shigella, Shimwellia, Siccibacter, Sodalis, Tatumella, Thorsellia, Trabulsiella, Wigglesworthia, Xenorhabdus, Yersinia, Yokenella CIP R fluoroquinolones R This is Enterobacterales except Salmonella spp.
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Expert Rules 3.3 Expert Rules on Enterobacterales fullname like ^(Serratia|Providencia|Morganella morganii) TGC R
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Expert Rules 3.3 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CTX S CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.3 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CRO S CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.3 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CAZ S CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.3 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CTX I CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.3 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CRO I CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.3 Expert Rules on Enterobacterales (AmpC de-repressed cephalosporins) fullname like ^(Enterobacter|Klebsiella aerogenes|Citrobacter braakii|Citrobacter freundii|Citrobacter gillenii|Citrobacter murliniae|Citrobacter rodenticum|Citrobacter sedlakii|Citrobacter werkmanii|Citrobacter youngae|Hafnia alvei|Serratia|Morganella morganii|Providencia) CAZ I CTX, CRO, CAZ This is rule 3 and 4 of EUCAST Expert Rules v3.2 on Enterobacterales, result will be set with the 'ampc_derepressed_cephalosporins' argument
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Expert Rules 3.3 Expert Rules on Enterococcus fullname like ^Enterococcus (faecalis|faecium) AMP R ureidopenicillins, IPM R
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Expert Rules 3.3 Expert Rules on Enterococcus fullname like ^Enterococcus (faecalis|faecium) AMX R ureidopenicillins, IPM R
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Expert Rules 3.3 Expert Rules on Enterococcus genus is Enterococcus NOR S CIP, LVX S
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Expert Rules 3.3 Expert Rules on Enterococcus genus is Enterococcus VAN S lipoglycopeptides S
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Expert Rules 3.3 Expert Rules on Enterococcus genus_species is Enterococcus faecium CLI R
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Expert Rules 3.3 Expert Rules on Haemophilus influenzae genus_species is Haemophilus influenzae PEN S betalactams S
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Expert Rules 3.3 Expert Rules on Haemophilus influenzae genus_species is Haemophilus influenzae NAL S fluoroquinolones S
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Expert Rules 3.3 Expert Rules on Haemophilus influenzae genus_species is Haemophilus influenzae NAL R CIP, LVX, MFX R
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Expert Rules 3.3 Expert Rules on Haemophilus influenzae genus_species is Haemophilus influenzae TCY S DOX, MNO S
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Expert Rules 3.3 Expert Rules on Haemophilus influenzae genus_species is Haemophilus influenzae TCY R DOX, MNO R
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Expert Rules 3.3 Expert Rules on Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL S fluoroquinolones S
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Expert Rules 3.3 Expert Rules on Moraxella catarrhalis genus_species is Moraxella catarrhalis NAL R fluoroquinolones R
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Expert Rules 3.3 Expert Rules on Salmonella genus is Salmonella cephalosporins_2nd R
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Expert Rules 3.3 Expert Rules on Salmonella genus is Salmonella aminoglycosides R
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Expert Rules 3.3 Expert Rules on Salmonella genus is Salmonella PEF R CIP R
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Expert Rules 3.3 Expert Rules on Staphylococcus genus_species is Staphylococcus aureus FOX R betalactams R
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Expert Rules 3.3 Expert Rules on Staphylococcus genus_species is Staphylococcus aureus FOX S betalactams_with_inhibitor S
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Expert Rules 3.3 Expert Rules on Staphylococcus genus_species one_of Staphylococcus aureus, Staphylococcus lugdunensis PEN R AMP, AMX, AZL, BAM, CRB, CRN, EPC, HET, MEC, MEZ, MTM, PIP, PME, PVM, SBC, TAL, TEM, TIC R all penicillins without beta-lactamse inhibitor
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Expert Rules 3.3 Expert Rules on Staphylococcus genus is Staphylococcus ERY, CLI S macrolides, lincosamides S
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Expert Rules 3.3 Expert Rules on Staphylococcus genus is Staphylococcus NOR S CIP, LVX, MFX, OFX S
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Expert Rules 3.3 Expert Rules on Staphylococcus genus is Staphylococcus LVX R fluoroquinolones R
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Expert Rules 3.3 Expert Rules on Staphylococcus genus is Staphylococcus MFX R fluoroquinolones R
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Expert Rules 3.3 Expert Rules on Staphylococcus genus is Staphylococcus TCY S DOX, MNO, TGC S
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Expert Rules 3.3 Expert Rules on Staphylococcus genus is Staphylococcus TCY R DOX, MNO R
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Expert Rules 3.3 Expert Rules on Staphylococcus genus is Staphylococcus VAN S lipoglycopeptides S
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Expert Rules 3.3 Expert Rules on Staphylococcus genus is Staphylococcus LNZ S TZD S
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Expert Rules 3.3 Expert Rules on Streptococcus A, B, C and G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G PEN S aminopenicillins, cephalosporins, carbapenems S
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Expert Rules 3.3 Expert Rules on Streptococcus A, B, C and G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR S LVX, MFX S
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Expert Rules 3.3 Expert Rules on Streptococcus A, B, C and G genus_species one_of Streptococcus Group A, Streptococcus Group B, Streptococcus Group C, Streptococcus Group G NOR R LVX, MFX R
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Expert Rules 3.3 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae OXA S PHN, PEN, aminopenicillins, cephalosporins_except_CAZ, carbapenems S
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Expert Rules 3.3 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR S LVX, MFX S
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Expert Rules 3.3 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae NOR R LVX, MFX R
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Expert Rules 3.3 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae LVX R fluoroquinolones R
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Expert Rules 3.3 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae MFX R fluoroquinolones R
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Expert Rules 3.3 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY S DOX, MNO S
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Expert Rules 3.3 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae TCY R DOX, MNO R
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Expert Rules 3.3 Expert Rules on Streptococcus pneumoniae genus_species is Streptococcus pneumoniae VAN S lipoglycopeptides S
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Expert Rules 3.3 Expert Rules on Viridans Group Streptococci genus_species one_of Viridans Group Streptococcus (VGS) PEN S aminopenicillins, CTX, CRO S
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. order is Enterobacterales PEN, glycopeptides_except_lipo, lipoglycopeptides, FUS, macrolides, lincosamides, streptogramins, RIF, oxazolidinones R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. fullname like ^Citrobacter (koseri|amalonaticus|sedlakii|farmeri|rodentium) aminopenicillins, TIC R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. fullname like ^Citrobacter (freundii|braakii|murliniae|werkmanii|youngae) aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, FOX R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Enterobacter cloacae aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, FOX R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Escherichia hermannii aminopenicillins, TIC R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Hafnia alvei aminopenicillins, AMC, polymyxins R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Klebsiella aerogenes aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, FOX R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Klebsiella oxytoca aminopenicillins, TIC R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. fullname like ^Klebsiella( pneumoniae| quasipneumoniae| variicola)? aminopenicillins, TIC R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Leclercia adecarboxylata FOS R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Morganella morganii aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, DOX, MNO, TCY, polymyxins, NIT R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Plesiomonas shigelloides aminopenicillins, AMC, SAM R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Proteus mirabilis DOX, MNO, TCY, TGC, polymyxins, NIT R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Proteus penneri aminopenicillins, CZO, CEP, LEX, CFR, CXM, DOX, MNO, TCY, TGC, polymyxins, NIT R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Proteus vulgaris aminopenicillins, CZO, CEP, LEX, CFR, CXM, DOX, MNO, TCY, TGC, polymyxins, NIT R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Providencia rettgeri aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, DOX, MNO, TCY, polymyxins, NIT R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Providencia stuartii aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, DOX, MNO, TCY, polymyxins, NIT R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus is Raoultella aminopenicillins, TIC R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Serratia marcescens aminopenicillins, AMC, SAM, CZO, CEP, LEX, CFR, FOX, CXM, DOX, TCY, polymyxins, NIT R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Yersinia enterocolitica aminopenicillins, AMC, SAM, TIC, CZO, CEP, LEX, CFR, FOX R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Yersinia pseudotuberculosis polymyxins R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Aeromonas hydrophila aminopenicillins, SAM R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Aeromonas veronii aminopenicillins, SAM, TIC R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Aeromonas dhakensis aminopenicillins, SAM, FOX R
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Expert Rules 3.3 Table 1: Intrinsic resistance in Enterobacterales and Aeromonas spp. genus_species is Aeromonas caviae aminopenicillins, SAM R
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Expert Rules 3.3 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus one_of Achromobacter, Acinetobacter, Alcaligenes, Bordetella, Burkholderia, Elizabethkingia, Flavobacterium, Ochrobactrum, Pseudomonas, Stenotrophomonas PEN, cephalosporins_1st, cephalosporins_2nd, glycopeptides_except_lipo, lipoglycopeptides, FUS, macrolides, lincosamides, streptogramins, RIF, oxazolidinones R
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Expert Rules 3.3 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria fullname like ^Acinetobacter (baumannii|pittii|nosocomialis) aminopenicillins, AMC, CRO, CTX, ATM, ETP, TMP, FOS, DOX, TCY R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.3 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus is Acinetobacter DOX, TCY R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.3 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus_species is Achromobacter xylosoxidans aminopenicillins, CRO, CTX, ETP, ATM R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.3 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria fullname like ^Burkholderia (ambifaria|anthina|arboris|cepacia|cenocepacia|contaminans|diffusa|dolosa|lata|latens|metallica|multivorans|paludis|pseudomultivorans|pyrrocinia|pseudomultivorans|seminalis|stabilis|stagnalis|territorii|ubonensis|vietnamiensis) aminopenicillins, AMC, SAM, TIC, TCC, PIP, TZP, CRO, CTX, ATM, ETP, CIP, CHL, aminoglycosides, TMP, FOS, polymyxins R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.3 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus_species is Elizabethkingia meningoseptica aminopenicillins, AMC, SAM, TIC, TCC, CTX, CRO, CAZ, FEP, ATM, ETP, IPM, MEM, polymyxins R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.3 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus_species is Elizabethkingia anophelis aminopenicillins, AMC, SAM, TIC, TCC, CTX, CRO, CAZ, FEP, ATM, ETP, IPM, MEM R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.3 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus_species is Brucella anthropi aminopenicillins, AMC, SAM, TIC, TCC, PIP, TZP, CZO, CTX, CRO, CAZ, FEP, ATM, ETP R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.3 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus_species is Pseudomonas aeruginosa aminopenicillins, AMC, SAM, CTX, CRO, ETP, CHL, KAN, NEO, TMP, DOX, MNO, TCY, TGC R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.3 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus_species is Stenotrophomonas maltophilia aminopenicillins, AMC, SAM, TIC, PIP, TZP, CRO, CTX, ATM, ETP, IPM, MEM, aminoglycosides, TMP, FOS, TCY R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.3 Table 2: Intrinsic resistance in non-fermentative gram-negative bacteria genus is Chryseobacterium aminopenicillins, AMC, SAM, TIC, TCC, CRO, CTX, CAZ, ATM, ETP, IPM, MEM, aminoglycosides, polymyxins R Additional rules from header added in separate rule (genus is one of…)
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Expert Rules 3.3 Table 3: Intrinsic resistance in other gram-negative bacteria genus_species is Haemophilus influenzae FUS, streptogramins, glycopeptides_except_lipo, lipoglycopeptides, lincosamides, oxazolidinones R
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Expert Rules 3.3 Table 3: Intrinsic resistance in other gram-negative bacteria genus_species is Moraxella catarrhalis TMP, glycopeptides_except_lipo, lipoglycopeptides, lincosamides, oxazolidinones R
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Expert Rules 3.3 Table 3: Intrinsic resistance in other gram-negative bacteria genus is Neisseria TMP, glycopeptides_except_lipo, lipoglycopeptides, lincosamides, oxazolidinones R
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Expert Rules 3.3 Table 3: Intrinsic resistance in other gram-negative bacteria genus_species is Campylobacter fetus FUS, streptogramins, TMP, NAL, glycopeptides_except_lipo, lipoglycopeptides, lincosamides, oxazolidinones R
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Expert Rules 3.3 Table 3: Intrinsic resistance in other gram-negative bacteria fullname like ^Campylobacter (jejuni|coli) FUS, streptogramins, TMP, glycopeptides_except_lipo, lipoglycopeptides, lincosamides, oxazolidinones R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria gramstain is Gram-positive ATM, TEM, polymyxins, NAL R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus saprophyticus FUS, CAZ, FOS, NOV R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus cohnii CAZ, NOV R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus xylosus CAZ, NOV R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus capitis CAZ, FOS R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus aureus CAZ R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Staphylococcus coagulase-negative CAZ R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus is Streptococcus FUS, CAZ, aminoglycosides R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecalis FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, CLI, QDA, SDI, SUD, SDM, SLF, SLF1, SLF2, SZO, SLF3, SLF4, SMX, SLF5, SLF6, SLF7, SLF8, SLF9, SLF10, SLF11, SLF12, SUT, SLF13 R These last ones are all true sulfonamides
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecalis TMP S SXT, SLT1, SLT2, SLT3, SLT4, SLT5 S Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecalis TMP I SXT, SLT1, SLT2, SLT3, SLT4, SLT5 I Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecalis TMP R SXT, SLT1, SLT2, SLT3, SLT4, SLT5 R Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria fullname like ^Enterococcus (gallinarum|casseliflavus) FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, CLI, QDA, VAN, SDI, SUD, SDM, SLF, SLF1, SLF2, SZO, SLF3, SLF4, SMX, SLF5, SLF6, SLF7, SLF8, SLF9, SLF10, SLF11, SLF12, SUT, SLF13 R These last ones are all true sulfonamides
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria fullname like ^Enterococcus (gallinarum|casseliflavus) TMP S SXT, SLT1, SLT2, SLT3, SLT4, SLT5 S Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria fullname like ^Enterococcus (gallinarum|casseliflavus) TMP I SXT, SLT1, SLT2, SLT3, SLT4, SLT5 I Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria fullname like ^Enterococcus (gallinarum|casseliflavus) TMP R SXT, SLT1, SLT2, SLT3, SLT4, SLT5 R Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecium FUS, CAZ, cephalosporins_except_CAZ, aminoglycosides, macrolides, SDI, SUD, SDM, SLF, SLF1, SLF2, SZO, SLF3, SLF4, SMX, SLF5, SLF6, SLF7, SLF8, SLF9, SLF10, SLF11, SLF12, SUT, SLF13 R These last ones are all true sulfonamides
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecium TMP S SXT, SLT1, SLT2, SLT3, SLT4, SLT5 S Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecium TMP I SXT, SLT1, SLT2, SLT3, SLT4, SLT5 I Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Enterococcus faecium TMP R SXT, SLT1, SLT2, SLT3, SLT4, SLT5 R Since R to sulfonamides - TMP result is equal with combinations
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus is Corynebacterium FOS R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus_species is Listeria monocytogenes CAZ, cephalosporins_except_CAZ R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus one_of Leuconostoc, Pediococcus VAN, TEC R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria genus is Lactobacillus VAN, TEC R
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Expert Rules 3.3 Table 4: Intrinsic resistance in gram-positive bacteria fullname like ^Clostridium (ramosum|innocuum) VAN R
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