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scheme_species_map.tab
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#SCHEME GENUS SPECIES
abaumannii Acinetobacter baumannii
abaumannii_2 Acinetobacter baumannii
achromobacter Achromobacter
aeromonas Aeromonas
afumigatus Aspergillus afumigatus
aphagocytophilum Anaplasma aphagocytophilum
arcobacter Arcobacter
bburgdorferi Borrelia burgdorferi
bcc Burkholderia cepacia
bcereus Bacillus cereus
bhampsonii Brachyspira hampsonii
bhenselae Bartonella henselae
bhyodysenteriae Brachyspira hyodysenteriae
bifidobacterium Bifidobacterium bifidobacterium
bintermedia Brachyspira intermedia
blicheniformis Bacillus licheniformis
bordetella Bordetella pertussis
borrelia Borrelia
bpilosicoli Brachyspira pilosicoli
bpseudomallei Burkholderia pseudomallei
brachyspira Brachyspira
bsubtilis Bacillus subtilis
calbicans Candida albicans
campylobacter Campylobacter coli
campylobacter Campylobacter jejuni
cbotulinum Clostridium botulinum
cconcisus Campylobacter concisus
cdifficile Clostridium difficile
cdifficile Peptoclostridium difficile
cdifficile_2 Clostridium difficile
cdiphtheriae Corynebacterium diphtheriae
cfetus Campylobacter fetus
cfreundii Citrobacter freundii
cglabrata Candida glabrata
chelveticus Campylobacter helveticus
chlamydiales Chlamydia
chyointestinalis Campylobacter hyointestinalis
cinsulaenigrae Campylobacter insulaenigrae
ckrusei Candida krusei
clanienae Campylobacter lanienae
clari Campylobacter lari
cmaltaromaticum Carnobacterium maltaromaticum
cneoformans Cryptococcus neoformans
cronobacter Cronobacter
csepticum Clostridium septicum
csinensis Clonorchis sinensis
csputorum Campylobacter sputorum
ctropicalis Candida tropicalis
cupsaliensis Campylobacter upsaliensis
ecloacae Enterobacter cloacae
ecoli Escherichia
ecoli Shigella
ecoli_2 Escherichia
edwardsiella Edwardsiella tarda
efaecalis Enterococcus faecalis
efaecium Enterococcus faecium
fpsychrophilum Flavobacterium psychrophilum
haemophilus Haemophilus
hcinaedi Helicobacter cinaedi
hinfluenzae Haemophilus influenzae
hparasuis Haemophilus parasuis
hpylori Helicobacter pylori
hsuis Haematopinus suis
kkingae Kingella kingae
koxytoca Klebsiella oxytoca
kpneumoniae Klebsiella pneumoniae
kseptempunctata Kudoa septempunctata
lcasei Lactobacillus casei
legionella Legionella
leptospira Leptospira
leptospira_2 Leptospira
leptospira_3 Leptospira
lmonocytogenes Listeria monocytogenes
lsalivarius Lactobacillus salivarius
mabscessus Mycobacterium abscessus
magalactiae Mycoplasma agalactiae
mbovis Mycoplasma bovis
mcatarrhalis Moraxells catarrhalis
mhaemolytica Mannheimia haemolytica
mhyorhinis Mycoplasma hyorhinis
mmassiliense Mycobacterium massiliense
mplutonius Melissococcus plutonius
neisseria Neisseria
orhinotracheale Ornithobacterium rhinotracheale
otsutsugamushi Orientia tsutsugamushi
pacnes Propionibacterium acnes
paeruginosa Pseudomonas aeruginosa
pagglomerans Pantoea agglomerans
pfluorescens Pseudomonas fluorescens
pfreudenreichii Propionibacterium freudenreichii
pgingivalis Porphyromonas gingivalis
plarvae Paenibacillus larvae
pmultocida_multihost Pasteurella multocida
pmultocida_rirdc Pasteurella multocida
ppentosaceus Pediococcus pentosaceus
pshigelloides Plesiomonas shigelloides
ranatipestifer Riemerella anatipestifer
sagalactiae Streptococcus agalactiae
saureus Staphylococcus aureus
scanis Streptococcus canis
sdysgalactiae Streptococcus dysgalactiae
senterica Salmonella enterica
sepidermidis Staphylococcus epidermidis
sgallolyticus Streptococcus gallolyticus
shaemolyticus Staphylococcus haemolyticus
shominis Stapylococcus hominis
sinorhizobium Sinorhizobium
slugdunensis Staphylococcus lugdunensis
smaltophilia Stenotrophomonas maltophilia
soralis Streptococcus oralis
spneumoniae Streptococcus pneumoniae
spseudintermedius Staphylococcus pseudintermedius
spyogenes Streptococcus pyogenes
ssuis Streptococcus suis
sthermophilus Streptococcus thermophilus
sthermophilus_2 Streptococcus thermophilus
streptomyces Streptomyces
suberis Streptococcus uberis
szooepidemicus Streptococcus equi
taylorella Taylorella
tenacibaculum Tenacibaculum
tvaginalis Trichomonas vaginalis
vcholerae Vibrio cholerae
vibrio Vibrio
vparahaemolyticus Vibrio parahaemolyticus
vtapetis Vibrio tapetis
vvulnificus Vibrio vulnificus
wolbachia Wolbachia
xfastidiosa Xylella fastidiosa
yersinia Yersinia
ypseudotuberculosis Yersinia pseudotuberculosis
yruckeri Yersinia ruckeri