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(v2.1.1.9195) add BTL-S, fix ranks in unknown microorganisms

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dr. M.S. (Matthijs) Berends
2025-03-13 14:30:14 +01:00
parent a7ef22a21e
commit 9aab129ea6
48 changed files with 1789 additions and 1710 deletions
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18
data-raw/microorganisms.txt
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@@ -1,13 +1,13 @@
"mo" "fullname" "status" "kingdom" "phylum" "class" "order" "family" "genus" "species" "subspecies" "rank" "ref" "oxygen_tolerance" "source" "lpsn" "lpsn_parent" "lpsn_renamed_to" "mycobank" "mycobank_parent" "mycobank_renamed_to" "gbif" "gbif_parent" "gbif_renamed_to" "prevalence" "snomed"
"B_GRAMN" "(unknown Gram-negatives)" "unknown" "Bacteria" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "subspecies" "manually added" 2 ""
"B_GRAMP" "(unknown Gram-positives)" "unknown" "Bacteria" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "subspecies" "manually added" 2 ""
"B_ANAER-NEG" "(unknown anaerobic Gram-negatives)" "unknown" "Bacteria" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "subspecies" "manually added" 2 ""
"B_ANAER-POS" "(unknown anaerobic Gram-positives)" "unknown" "Bacteria" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "subspecies" "manually added" 2 ""
"B_ANAER" "(unknown anaerobic bacteria)" "unknown" "Bacteria" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "subspecies" "manually added" 2 ""
"F_FUNGUS" "(unknown fungus)" "unknown" "Fungi" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "subspecies" "manually added" 2 ""
"UNKNOWN" "(unknown name)" "unknown" "(unknown kingdom)" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "subspecies" "manually added" 2 ""
"P_PROTOZOAN" "(unknown protozoan)" "unknown" "Protozoa" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "subspecies" "manually added" 2 ""
"F_YEAST" "(unknown yeast)" "unknown" "Fungi" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "subspecies" "manually added" 2 ""
"B_GRAMN" "(unknown Gram-negatives)" "unknown" "Bacteria" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "(unknown rank)" "manually added" 2 ""
"B_GRAMP" "(unknown Gram-positives)" "unknown" "Bacteria" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "(unknown rank)" "manually added" 2 ""
"B_ANAER-NEG" "(unknown anaerobic Gram-negatives)" "unknown" "Bacteria" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "(unknown rank)" "manually added" 2 ""
"B_ANAER-POS" "(unknown anaerobic Gram-positives)" "unknown" "Bacteria" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "(unknown rank)" "manually added" 2 ""
"B_ANAER" "(unknown anaerobic bacteria)" "unknown" "Bacteria" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "(unknown rank)" "manually added" 2 ""
"F_FUNGUS" "(unknown fungus)" "unknown" "Fungi" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "(unknown rank)" "manually added" 2 ""
"UNKNOWN" "(unknown name)" "unknown" "(unknown kingdom)" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "(unknown rank)" "manually added" 2 ""
"P_PROTOZOAN" "(unknown protozoan)" "unknown" "Protozoa" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "(unknown rank)" "manually added" 2 ""
"F_YEAST" "(unknown yeast)" "unknown" "Fungi" "(unknown phylum)" "(unknown class)" "(unknown order)" "(unknown family)" "(unknown genus)" "(unknown species)" "(unknown subspecies)" "(unknown rank)" "manually added" 2 ""
"F_AABRN" "Aabaarnia" "unknown" "Fungi" "Ascomycota" "Lecanoromycetes" "Ostropales" "" "Aabaarnia" "" "" "genus" "manually added" "90490" "1279" 2 ""
"B_[FAM]_ABDTBCTR" "Abditibacteriaceae" "accepted" "Bacteria" "Abditibacteriota" "Abditibacteriia" "Abditibacteriales" "Abditibacteriaceae" "" "" "" "family" "Tahon et al., 2018" "LPSN" "4812" "4982" "10678443" "10853930" 2 ""
"B_[ORD]_ABDTBCTR" "Abditibacteriales" "accepted" "Bacteria" "Abditibacteriota" "Abditibacteriia" "Abditibacteriales" "" "" "" "" "order" "Tahon et al., 2018" "LPSN" "4982" "29679" "10853930" 2 ""