Table of Contents
Human Metagenome Project
Human gut microbiomes
Sequencing 13 samples from healthy Japanese infants and adults
| Sample Name | Age | Sex | Sequence in Mb | Collaborators | ||
|---|---|---|---|---|---|---|
| 1 | individual | In-A | 45 | M | 52.5 | HMGJ |
| 2 | individual | In-B | 6 months | M | 62.8 | HMGJ |
| 3 | individual | In-D | 35 | M | 55.1 | HMGJ |
| 4 | individual | In-E | 3 months | M | 56.8 | HMGJ |
| 5 | individual | In-M | 4 months | F | 57.8 | HMGJ |
| 6 | individual | In-R | 24 | M | 55.4 | HMGJ |
| 7 | Family | F1-S | 30 | M | 53.6 | HMGJ |
| 8 | F1-T | 28 | F | 55.4 | HMGJ | |
| 9 | F1-U | 7 months | F | 53.6 | HMGJ | |
| 10 | Family | F2-V | 37 | M | 55.9 | HMGJ |
| 11 | F2-W | 36 | F | 54.9 | HMGJ | |
| 12 | F2-X | 3 | M | 56.6 | HMGJ | |
| 13 | F2-Y | 1.5 | F | 56.3 | HMGJ | |
| Total | 727 |
＊HMGJ, Metagenome.jp - Human MetaGenome Consortium, Japan
Publication
Kurokawa K, Itoh T, Kuwahara T, Oshima K, Toh H, Toyoda A, Takami H, Morita H, Sharma VK, Srivastava TP, Taylor TD, Noguchi H, Mori H, Ogura Y, Ehrlich DS, Itoh K, Takagi T, Sakaki Y, Hayashi T, Hattori M.
Comparative Metagenomics Revealed Commonly Enriched Gene Sets in Human Gut Microbiomes.
DNA Res. (2007) 14:169-81.
Download trace data
Please download trae data from the following FTP sites.
ftp://ftp.ddbj.nig.ac.jp/ddbj_database/dta/UTCOB
微生物ゲノム配列解析
| Organism | Status | Size | Publication | Co-Lab. | ||
|---|---|---|---|---|---|---|
| 1 | Adlercreutzia equolifaciens DSM 19450T | Complete | 2,862,633 nt | probiotics | in preparation | Azabu-U |
| 2 | Aeromonas hydrophila | Complete | 4,682,614 nt | pathogen | in preparation | Tokyo MarinScience-U |
| 3 | Agromonas oligotrophica S58 | Complete | 8,264,165 nt | soil | in preparation | Tohoku-U |
| 4 | Arcobacter butzleri ED-1 | Complete | 2,256,675 nt | industrial use | J Bacteriol (2011) | RIKEN/U-Edinburgh |
| 5 | Arcobacter sp. L | Complete | 2,945,673 nt | industrial use | J Bacteriol (2011) | RIKEN/U-Edinburgh |
| 6 | Aspergillus sojae NBRC 4239 | Draft | 39.5 M | industrial use | DNA res (2011) | Kikkoman/TITech |
| 7 | Azoarcus sp. KH32C | Complete | 5,081,166 nt | soil | in preparation | U-Tokyo |
| 8 | Bacillus cereus NC7401 | Complete | 5,221,581 nt | pathogen | in preparation | Nagoya-U |
| 9 | Bacillus subtilis ATCC 6051 | Draft | 3.9 M | pathogen | in preparation | NAIST |
| 10 | Bacteroides fragilis YCH46 | Complete | 5,277,274 nt | pathogen | PNAS (2004) | Tokushima-U |
| 11 | Bacteroides massiliensis A_03 | Complete | 4,794,082 nt | commensal | in preparation | Tokushima-U/RIKEN |
| 12 | Bacteroides sp. A_01 | Incomplete | 5.0 M | commensal | Tokushima-U/RIKEN | |
| 13 | Bifidobacterium angulatum JCM 7096 | Complete | 2,021,974 nt | commensal | in preparation | Azabu-U |
| 14 | Bifidobacterium bifidum JCM 1255 | Complete | 2,211,039 nt | commensal | in preparation | Azabu-U |
| 15 | Bifidobacterium breve JCM 1192 | Complete | 2,269,455 nt | commensal | in preparation | Azabu-U |
| 16 | Bifidobacterium catenulatum JCM 1194 | Complete | 2,079,525 nt | commensal | in preparation | Azabu-U |
| 17 | Bifidobacterium dentium JCM 1195 | Complete | 2,385,164 nt | commensal | in preparation | Azabu-U |
| 18 | Bifidobacterium longum subsp. longum ATCC 15707T | Complete | 3,158,347 nt | commensal | Nature (2011) | Azabu-U/RIKEN |
| 19 | Bifidobacterium longum subsp. infantis 157F | Complete | 2,400,312 nt | commensal | Nature (2011) | Azabu-U/RIKEN |
| 20 | Bifidobacterium longum subsp. infantis ATCC 15697 | Complete | 2,828,958 nt | commensal | Nature (2011) | Azabu-U/RIKEN |
| 21 | Bifidobacterium scardovii JCM 12489 | Complete | 2,635,669 nt | commensal | in preparation | Azabu-U |
| 22 | Bifidobacterium pseudocatenulatum JCM 1200 | Complete | 2,313,752 nt | commensal | in preparation | Azabu-U |
| 23 | Bifidobacterium kashiwanohense JCM 15439 | Complete | 2,337,234 nt | commensal | IJSEM (2011) | Azabu-U |
| 24 | Bifidobacterium sp. JCM 16039 | Complete | 2,345,793 nt | commensal | in preparation | Azabu-U |
| 25 | Bradyrhizobium betae S23321 | Complete | 7,231,841 nt | soil | in preparation | Azabu-U |
| 26 | Buchnera aphidicola str.APS | Complete | 640,681nt | insect symbiont | Nature (2000) | U-Tokyo/RIKEN |
| 27 | Burkholderia multivorans ATCC 17616 | Complete | 6,841,388 nt | pathogen | Tohoku-U | |
| 28 | Candidatus Arthromitus sp. SFB-mouse-Japan | Complete | 1,620,005 nt | mouse commensal | DNA Res (2011) | Kagawa-U/Miyazaki-U/Azabu-U |
| 29 | Candidatus Arthromitus sp. SFB-mouse-Yit | Complete | 1,586,397 nt | mouse commensal | Cell MH (2011) | RIKEN/Yakult/Azabu-U |
| 30 | Candidatus Arthromitus sp. SFB-rat-Yit | Complete | 1,515,556 nt | rat commensal | Cell MH (2011) | RIKEN/Yakult/Azabu-U |
| 31 | Canditatus Carsonella ruddii PV | Complete | 159,662 nt | insect symbiont | Science (2006) | RIKEN/Arizona-U |
| 32 | Candidatus Ishikawaella capsulata Mpkobe | Complete | 745,590 nt | insect symbiont | Genome Biol Evol (2011) | Air-U/AIST |
| 33 | Chlamydophila caviae | Complete | 1,173,387 nt | pathogen | in preparation | Okayama-U |
| 34 | Chlamydophila felis Fe/C-56 | Complete | 1,166,239 nt | pathogen | DNA Res (2006) | Yamaguchi-U |
| 35 | Chlamydophila pneumoniae J138 | Complete | 1,226,565 nt | pathogen | Nucleic Acids Res (2000) | Yamaguchi-U |
| 36 | Clostridium acetobutylicum | Draft | 4.0 M | industrial use | Kyushu-U | |
| 37 | Clostridium chauvoei | Draft | 3.0 M | pathogen | Kanazawa-U | |
| 38 | Clostridium cluster group XIVa SY8519 | Complete | 3,031,430 nt | probaiotics | J Bacteriol (2011) | Gifu-U |
| 39 | Clostridium clostridioforme JCM 1291 | Incomplete | 5.3 M | calf rumen | Tokushima-U/RIKEN | |
| 40 | Clostridium innocuum JCM 1292 | Draft | 3.0 M | commensal | Tokushima-U/RIKEN | |
| 41 | Clostridium paraputrificum JCM 1293 | Complete | 3,515,907 nt | commensal | in preparation | Tokushima-U/RIKEN |
| 42 | Clostridium perfringens str.13 | Complete | 3,031,430 nt | pathogen | PNAS (2002) | Tsukuba-U |
| 43 | Clostridium ramosum JCM 1298 | Complete | 3,240,990 nt | commensal | in preparation | Tokushuma-U/RIKEN |
| 44 | Clostridium septicum | Draft | 3.0 M | pathogen | Kanazawa-U | |
| 45 | Corynebacterium glutamicum ATCC 13032 | Complete | 3,309,401 nt | industrial use | Appl Microbiol Biotech (2003) | Kyowahhako |
| 46 | Corynebacterium macginleyi TBS-13 | Complete | 2,695,463 nt | pathogen | in preparation | Tokushima-U |
| 47 | Cyanothece sp. TU126 | Draft | 6.0 M | marine | RITE | |
| 48 | Cycloclasticus sp. SUSI-4 | Complete | 2,338,755 nt | industrial use | in preparation | Nihon-U |
| 49 | Eggerthella sp. YY7918 | Complete | 3,123,671 nt | industrial use | J Bacteriol (2011) | Gifu-U |
| 50 | Escherichia coli O103 strain12009 | Complete | 5,449,314 nt | pathogen | PNAS (2009) | Miyazaki-U |
| 51 | Escherichia coli O111 strain11128 | Complete | 5,371,077 nt | pathogen | PNAS (2009) | Miyazaki-U |
| 52 | Escherichia coli O26 strain11044 | Complete | 5,697,240 nt | pathogen | PNAS (2009) | Miyazaki-U |
| 53 | Escherichia coli O157:H7 sakai | Complete | 5,498,450 nt | pathogen | DNA Res (2001) | Miyazaki-U/Osaka-U |
| 54 | Escherichia coli SE11 (JCM 16574) | Complete | 4,887,515 nt | commensal | DNA Res (2008) | Miyazaki-U |
| 55 | Escherichia coli SE15 (JCM 16575) | Complete | 4,717,338 nt | commensal | J Bacteriol (2010) | Miyazaki-U/RIKEN |
| 56 | Finegoldia magna ATCC 29328 | Complete | 1,797,577 nt | pathogen | DNA Res (2008) | Wakayama Med-U |
| 57 | Gardnerella vaginalis JCM 11026T | Complete | 1,667,406 nt | pathogen | in preparation | Azabu-U |
| 58 | Halomonas elongata | Complete | 4,066,209 nt | pathogen | in preparation | Osaka-U/RITE |
| 59 | Helicobacter pyroli F16 | Complete | 1,575,399 nt | pathgen | PNAS (2011) | Tokyo-U/Kobe-U |
| 60 | Helicobacter pyroli F30 | Complete | 1,5705,64 nt | pathgen | PNAS (2011) | Tokyo-U/Kobe-U |
| 61 | Helicobacter pyroli F32 | Complete | 1,578,824 nt | pathgen | PNAS (2011) | Tokyo-U/Kobe-U |
| 62 | Helicobacter pyroli F57 | Complete | 1,609,006 nt | pathgen | PNAS (2011) | Tokyo-U/Kobe-U |
| 63 | Lactobacillus brevis KB290 | Complete | 2,395,134 nt | probiotics | in preparation | KAGOME |
| 64 | Lactobacillus casei ATCC 393 | Complete | 2,924,929 nt | probiotics | in preparation | Azabu-U/NIHS |
| 65 | Lactobacillus fermentum IFO 3956 | Complete | 2,098,685 nt | others | DNA Res (2008) | Azabu-U |
| 66 | Lactobacillus helveticus CM4 | Complete | 2,028,493 nt | probiotics | Calpis | |
| 67 | Lactobacillus paracasei JCM 8130T | Complete | 2,995,875 nt | commensal | in preparation | Azabu-U |
| 68 | Lactobacillus reuteri JCM 1112 | Complete | 2,039,414 nt | commensal | DNA Res (2008) | Azabu-U |
| 69 | Lactobacillus rhamnosus ATCC 53103 | Complete | 3,005,051 nt | commensal | J Bacteriol (2009) | Azabu-U/NIHS |
| 70 | Lactococcus garviae ATCC 49156 | Complete | 1,950,135 nt | marine | PLoS ONE (2011) | Azabu-U |
| 71 | Lactococcus garviae Lg2 | Complete | 1,963,964 nt | fish pathogen | PLoS ONE (2011) | Azabu-U |
| 72 | Lactococcus lactis IO-1 | Complete | 2,421,471 nt | probaiotics | in preparation | Nodai |
| 73 | Micromonospora olivasterospor | Draft | 8.0 M | Industrial use | Tokyo-U/Kitasato-U | |
| 74 | Mycoplasma penetrans HF-2 | Complete | 1,358,633 nt | pathogen | Nucleic Acids Res (2002) | NIID |
| 75 | Nocardia farcinica IFM10152 | Complete | 6,021,225 nt | pathogen | PNAS (2004) | NIID |
| 76 | Orientia tsutsugamushi IKEDA | Complete | 2,008,987 nt | pathogen | DNA Res (2008) | Miyzaki-U |
| 77 | Parascardovia denticolens JCM 12538T | Complete | 1,890,857 nt | pathogen | in preparation | Azabu-U |
| 78 | Porphyromonas gingivalis ATCC 33277 | Complete | 2,354,886 nt | pathogen | DNA Res (2008) | Nagasaki-U |
| 79 | Porphyromonas gingivalis TDC60 | Complete | 2,354,886 nt | pathogen | J Bacteriol (2011) | TITech/TMDU |
| 80 | Pseudogulbenkiania sp. NH8B | Complete | 4,332,995 nt | soil | J Bacteriol (2011) | U-Tokyo |
| 81 | Raoultella ornithinolytica AA097 | Complete | 5,470,207 nt | commensal | in preparation | Miyazaki-U/RIKEN |
| 82 | Rickettsia japonica YH | Complete | 1,283,087 nt | pathogen | Yamaguchi-U | |
| 83 | Ruminococcus gnavus TBH11 | Complete | 3,953,418 nt | commensal | in preparation | Tokushima-U |
| 84 | Scardovia inopinata JCM 12537T | Complete | 1,797,862 nt | pathogen | in preparation | Azabu-U |
| 85 | Serratia marcescens SM28 | Complete | 5,225,987 nt | pathogen | in preparation | Kyoto Pharmaceutical-U |
| 86 | Sodalis glossinidius str.'morsitans' | Complete | 4,171,146 nt | insect symbiont | Genome Res (2006) | Yale-U |
| 87 | Staphylococcus aureus subsp. aureus Mu50 | Complete | 2,878,529 nt | pathogen | Lancet (2001) | Tsukuba-U |
| 88 | Staphylococcus hyicus | Complete | 2.5 M | pathogen | in preparation | Hiroshima-U |
| 89 | Staphylococcus pseudintermedius MS5134 | Complete | 2,532,333 nt | pathogen | in preparation | Hiroshima-U |
| 90 | Staphylococcus saprophyticus ATCC15305 | Complete | 2,516,575 nt | pathogen | PNAS (2005) | Tsukuba-U |
| 91 | Streptococcus mutans NN2025 | Complete | 2,013,587 nt | pathogen | BMC Genomics (2009) | TMDU |
| 92 | Streptococcus pyogenes SSI-1 | Complete | 1,894,275 nt | pathogen | Genome Res (2003) | 大阪大 |
| 93 | Streptomyces avermitilis MA-4680 | Complete | 9,025,608 nt | soil, industrial use | PNAS (2001) | Kitasato-U/NITE |
| 94 | Streptomyces griseus IFO 13350 | Complete | 8,545,929 nt | soil, industrial use | J Bacteriol (2008) | 東京大 |
| 95 | Symbiobacterium thermophilum IAM14863 | Complete | 3,566,135 nt | soil, symbiont | Nucleic Acids Res (2004) | Nihon-U |
| 96 | Treponema phagedenis YG3903R | Complete | 3,558,565 nt | animal pathogen | in preparation | Miyazaki-U |
| 97 | Vibrio parahaemolyticus RIMD2210633 | Complete | 5,165,770 nt | pathogen | Lancet (2003) | Osaka-U |
| 98 | Wigglesworthia glossinidia endosymbiont of G.brevipalpis | Complete | 697,724 nt | insect symbiont | Nature Genet (2002) | Yale-U/RIKEN |
| 99 | Wigglesworthia morsitans | Complete | 719,535 nt | insect symbiont | in preparation | Yale-U |
