214 PROKARYOTES:
acav Acidovorax avenae subsp. citrulli AAC00-1
acma Acaryochloris marina MBIC11017
acpl Actinobacillus pleuropneumoniae L20
acsp Acinetobacter sp. ADP1
aehy Aeromonas hydrophila subsp. hydrophila ATCC 7966
aepe Aeropyrum pernix K1
agtu Agrobacterium tumefaciens str. C58
albo Alcanivorax borkumensis SK2
ande Anaeromyxobacter dehalogenans 2CP-C
anma Anaplasma marginale str. St. Maries
anph Anaplasma phagocytophilum HZ
anva Anabaena variabilis ATCC 29413
aqae Aquifex aeolicus VF5
arau Arthrobacter aurescens TC1
arbu Arcobacter butzleri RM4018
arfu Archaeoglobus fulgidus DSM 4304
azsp Azoarcus sp. EbN1
baan Bacillus anthracis str. Ames
bace Bacillus cereus AH187
bafr Bacteroides fragilis YCH46
baha Bacillus halodurans C-125
bahe Bartonella henselae str. Houston-1
bali Bacillus licheniformis ATCC 14580
baqu Bartonella quintana str. Toulouse
basu Bacillus subtilis subsp. subtilis str. 168
bath Bacteroides thetaiotaomicron VPI-5482
batu Bacillus thuringiensis serovar konkukian str. 97-27
bdba Bdellovibrio bacteriovorus HD100
bilo Bifidobacterium longum NCC2705
bobr Bordetella bronchiseptica RB50
bobu Borrelia burgdorferi B31
boga Borrelia garinii PBi chromosome linear
bope Bordetella pertussis Tohama I
brab Brucella abortus biovar 1 str. 9-941  
brja Bradyrhizobium japonicum USDA 110
brme Brucella melitensis 16M  
brsu Brucella suis 1330  
buapA Buchnera aphidicola str. Sg (Schizaphis graminum)
buapC Buchnera aphidicola str. Sg (Schizaphis graminum)
buma Burkholderia mallei ATCC 23344 
bups Burkholderia pseudomallei K96243 
cabl Candidatus Blochmannia floridanus
cacr Caulobacter crescentus NA1000
cahy Carboxydothermus hydrogenoformans Z-2901
caje Campylobacter jejuni subsp. jejuni NCTC 11168
cama Caldivirga maquilingensis IC-167
cape Candidatus Pelagibacter ubique HTCC1062
chab Chlamydophila abortus S26/3
chau Chloroflexus aurantiacus J-10-fl
chca Chlamydophila caviae GPIC
chmu Chlamydia muridarum Nigg
chpn Chlamydophila pneumoniae AR39
chte Chlorobium tepidum TLS
chtr Chlamydia trachomatis D/UW-3/CX
chvi Chromobacterium violaceum ATCC 12472
clac Clostridium acetobutylicum ATCC 824
clpe Clostridium perfringens str. 13
clte Clostridium tetani E88
cobu Coxiella burnetii RSA 493
cogl Corynebacterium glutamicum ATCC 13032
cops Colwellia psychrerythraea 34H
deac Delftia acidovorans SPH-1
deet Dehalococcoides ethenogenes 195
deps Desulfotalea psychrophila LSv54
dera Deinococcus radiodurans R1 
dere Desulfotomaculum reducens MI-1
devu Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough
dish Dinoroseobacter shibae DFL 12
ehca Ehrlichia canis str. Jake
ehch Ehrlichia chaffeensis str. Arkansas
enfa Enterococcus faecalis V583
ensa Enterobacter sakazakii ATCC BAA-894
erca Erwinia carotovora subsp. atroseptica SCRI1043
esco Escherichia coli str. K-12 substr. MG1655
frtu Francisella tularensis subsp. tularensis WY96-3418
funu Fusobacterium nucleatum subsp. nucleatum ATCC 25586
gesu Geobacter sulfurreducens PCA
glox Gluconobacter oxydans 621H
glvi Gloeobacter violaceus PCC 7421
grfo Gramella forsetii KT0803
hadu Haemophilus ducreyi 35000HP
hain Haemophilus influenzae Rd KW20
hama Haloarcula marismortui ATCC 43049  
hasp Halobacterium sp. NRC-1
hawa Haloquadratum walsbyi DSM 16790
heau Herpetosiphon aurantiacus ATCC 23779
hehe Helicobacter hepaticus ATCC 51449
hepy Helicobacter pylori 26695
hybu Hyperthermus butylicus DSM 5456
igho Ignicoccus hospitalis KIN4/I
laac Lactobacillus acidophilus NCFM
lajo Lactobacillus johnsonii NCC 533
lala Lactococcus lactis subsp. lactis Il1403
lapl Lactobacillus plantarum WCFS1
lein Leptospira interrogans serovar Lai str. 56601  
lepn Legionella pneumophila subsp. pneumophila str. Philadelphia 1
lexy Leifsonia xyli subsp. xyli str. CTCB07
liin Listeria innocua Clip11262
limo Listeria monocytogenes EGD-e
masu Mannheimia succiniciproducens MBEL55E
meba Methanosarcina barkeri str. fusaro 
mebu Methanococcoides burtonii DSM 6242
meca Methylococcus capsulatus str. Bath
meex Methylobacterium extorquens PA1
mefg Methylobacillus flagellatus KT
meja Methanocaldococcus jannaschii DSM 2661
meka Methanopyrus kandleri AV19
melo Mesorhizobium loti MAFF303099
meth Methanothermobacter thermautotrophicus str. Delta H
moth Moorella thermoacetica ATCC 39073
myav Mycobacterium avium subsp. paratuberculosis K-10
mybo Mycobacterium bovis AF2122/97
myca Mycoplasma capricolum subsp. capricolum ATCC 27343
myga Mycoplasma gallisepticum R
myge Mycoplasma genitalium G37
myhy Mycoplasma hyopneumoniae J
myle Mycobacterium leprae TN
mymo Mycoplasma mobile 163K
mymy Mycoplasma mycoides subsp. mycoides SC str. PG1
mypn Mycoplasma pneumoniae M129
mypu Mycoplasma pulmonis UAB CTIP
mytu Mycobacterium tuberculosis H37Rv
myxa Myxococcus xanthus DK 1622
naeq Nanoarchaeum equitans Kin4-M
nego Neisseria gonorrhoeae FA 1090
neme Neisseria meningitidis Z2491
nieu Nitrosomonas europaea ATCC 19718
niwi Nitrobacter winogradskyi Nb-255
nofa Nocardia farcinica IFM 10152
nosp Nostoc sp. PCC 7120
oeoe Oenococcus oeni PSU-1
pade Paracoccus denitrificans PD1222 
pamu Pasteurella multocida subsp. multocida str. Pm70
pasp Candidatus Protochlamydia amoebophila UWE25
pemo Petrotoga mobilis SJ95
phlu Photorhabdus luminescens subsp. laumondii TTO1
phpr Photobacterium profundum SS9 
pisp Rhodopirellula baltica SH 1
pito Picrophilus torridus DSM 9790
pogi Porphyromonas gingivalis W83
prac Propionibacterium acnes KPA171202
prma Prochlorococcus marinus subsp. marinus str. CCMP1375
psae Pseudomonas aeruginosa PAO1
psha Pseudoalteromonas haloplanktis TAC125  
psin Psychromonas ingrahamii 37
pspu Pseudomonas putida KT2440
pssy Pseudomonas syringae pv. tomato str. DC3000
pyab Pyrococcus abyssi GE5
pyae Pyrobaculum aerophilum str. IM2
pyar Pyrobaculum arsenaticum DSM 13514
pyfu Pyrococcus furiosus DSM 3638
pyho Pyrococcus horikoshii OT3
raso Ralstonia solanacearum GMI1000
rhfe Rhodoferax ferrireducens T118
rhpa Rhodopseudomonas palustris BisB18
rhrh Rhodococcus jostii RHA1
rhru Rhodospirillum rubrum ATCC 11170
rhsp Rhodobacter sphaeroides 2.4.1 
rico Rickettsia conorii str. Malish 7
ripr Rickettsia prowazekii str. Madrid E
rity Rickettsia typhi str. Wilmington
ruxy Rubrobacter xylanophilus DSM 9941
saru Salinibacter ruber DSM 13855
saty Salmonella typhimurium LT2 
shon Shewanella oneidensis MR-1
sime Sinorhizobium meliloti 1021
sipo Silicibacter pomeroyi DSS-3
soce Sorangium cellulosum 'So ce 56'
sogl Sodalis glossinidius str. 'morsitans'
spal Sphingopyxis alaskensis RB2256
stag Streptococcus agalactiae 2603V/R
stau Staphylococcus aureus subsp. aureus Mu50
stco Streptomyces coelicolor A3(2)
step Staphylococcus epidermidis ATCC 12228
stma Staphylothermus marinus F1
stmu Streptococcus mutans UA159
stpn Streptococcus pneumoniae TIGR4
stpy Streptococcus pyogenes M1 GAS
stth Streptococcus thermophilus LMG 18311
suac Sulfolobus acidocaldarius DSM 639
suso Sulfolobus solfataricus P2
suto Sulfolobus tokodaii str. 7
syac Syntrophus aciditrophicus SB
syel Synechococcus elongatus PCC 6301
syfu Syntrophobacter fumaroxidans MPOB
sysp Synechocystis sp. PCC 6803
syth Symbiobacterium thermophilum IAM 14863
sywh Synechococcus sp. WH 8102
thac Thermoplasma acidophilum DSM 1728
thcr Thiomicrospira crunogena XCL-2
thel Thermosynechococcus elongatus BP-1
thma Thermotoga maritima MSB8
thte Thermoanaerobacter tengcongensis MB4
thth Thermus thermophilus HB27
thvo Thermoplasma volcanium GSS1
trde Treponema denticola ATCC 35405
trer Trichodesmium erythraeum IMS101
trpa Treponema pallidum subsp. pallidum str. Nichols
trwh Tropheryma whipplei str. Twist
urur Ureaplasma urealyticum serovar 10 str. ATCC 33699
vich Vibrio cholerae O1 biovar eltor str. N16961  
vifi Vibrio fischeri ES114  
vipa Vibrio parahaemolyticus RIMD 2210633  
vivu Vibrio vulnificus CMCP6  
wigl Wigglesworthia glossinidia endosymbiont of Glossina brevipalpis
wobm Wolbachia endosymbiont strain TRS of Brugia malayi
wouc Wolinella succinogenes DSM 1740
xaax Xanthomonas axonopodis pv. citri str. 306
xaca Xanthomonas campestris pv. campestris str. ATCC 33913
xaor Xanthomonas oryzae pv. oryzae KACC10331
xyfa Xylella fastidiosa 9a5c
yepe Yersinia pestis CO92
yeps Yersinia pseudotuberculosis IP 32953
zymo Zymomonas mobilis subsp. mobilis ZM4

METAGENOMES:
AMDB acid mine drainage biofilm metagenome  (original dataset: Tyson et al, Nature, 2004)
WCFS Waseca county farm soil metagenome (original dataset: Tringe et al, Science, 2005)
HDGM human distal gut microbiome (original dataset: Gill et al, Science, 2006)
In-A Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
In-B Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
In-D Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
In-E Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
In-M Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
In-R Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
F1-S Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
F1-T Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
F1-U Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
F2-V Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
F2-W Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
F2-X Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
F2-Y Human Metagenome Consortium Japan (original dataset: Kurokawa, DNA Research, 2007)
