Escherichia coli pan-genome analysis using next-generation DNA sequencing technologies

• Project/Area Number: 20310116
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: 基礎ゲノム科学
• Research Institution: University of Miyazaki
• Principal Investigator: HAYASHI Tetsuya University of Miyazaki, フロンティア科学実験総合センター, 教授 (10173014)
• Co-Investigator(Kenkyū-buntansha): OGURA Yoshitoshi 宮崎大学, フロンティア科学実験総合センター, 助教 (40363585) ; OHOKA Tadasuke 宮崎大学, 医学部, 助教 (50363594) ; KUROKAWA Ken 東京工業大学, 生命理工学研究科, 教授 (20343246)
• Project Period (FY): 2008 – 2010
• Project Status: Completed (Fiscal Year 2010)
• Budget Amount: ¥19,630,000 (Direct Cost: ¥15,100,000、Indirect Cost: ¥4,530,000); Fiscal Year 2010: ¥6,630,000 (Direct Cost: ¥5,100,000、Indirect Cost: ¥1,530,000); Fiscal Year 2009: ¥7,150,000 (Direct Cost: ¥5,500,000、Indirect Cost: ¥1,650,000); Fiscal Year 2008: ¥5,850,000 (Direct Cost: ¥4,500,000、Indirect Cost: ¥1,350,000)
• Keywords: ゲノム / 微生物 / 細菌 / 進化 / 感染症

Research Abstract

We collected numerous Escherichia coli strains of various pathotypes and origins and performed a large scale genome sequencing using next-generation sequencers. Genomic comparison of these sequenced strains and already sequenced strains provided the pan-genome information of E. coli and revealed several genomic features characteristic to enterohemorrhagic E. coli (EHEC) or other pathotypes. Furthermore, we found a significant number of E. arbertii strains are included in the strains isolated as EHEC or enteropathogenic E. coli (EPEC) and obtained draft sequences of representative E. arbertii strains.

Research Products

• [Journal Article] IS-excision enhancer removes transposable elements from bacterial genomes and induces various genomic deletions. (2011)
  • Author(s): M.Kusumoto, T.Ooka, Y.Nishiya, Y.Ogura, (他4名) T.Hayashi
  • Journal Title: Nat.Commun. 2:152
  • Peer Reviewed
• [Journal Article] IS-excision enhancer removes transposable elements from bacterial genomes and induces various genomic deletions. (2011)
  • Author(s): M.Kusumoto, et al.
  • Journal Title: Nat.Commun. Volume: 2:152
  • Peer Reviewed
• [Journal Article] Enterotypes of the human gut microbiome. (2011)
  • Author(s): M.Arumugam, et al.
  • Journal Title: Nature
  • Peer Reviewed
• [Journal Article] Transcription factor GreA contributes to resolve promoter proximal pausing of RNA polymerase in B.subtilis cells. (2011)
  • Author(s): Y.Kusuya, et al.
  • Journal Title: J.Bacteriol. Volume: (in press)
  • Peer Reviewed
• [Journal Article] CRISPR inhibition of prophage acquisition in Streptococcus pyogenes. (2011)
  • Author(s): T.Nozawa, et al.
  • Journal Title: PLoS ONE Volume: (in press)
  • Peer Reviewed
• [Journal Article] N1eC, a type III secretion protease, compromises NF-κB activation by targeting p65/RelA. (2010)
  • Author(s): H.Yen, T.Ooka, A.Iguchi, T.Hayashi, N.Sugimoto, T.Tobe
  • Journal Title: PLoS Pathog. 6(12)
  • Peer Reviewed
• [Journal Article] New system for multilocus variable-number tandem-repeat analysis of the enterohemorrhagic Escherichia coil strains belonging to three major serogroups : 0157, 026, and 0111. (2010)
  • Author(s): H.Izumiya, (他3名), T.Hayashi, S.Iyoda, H.Watanabe
  • Journal Title: Microbiol.Immunol. 54 Pages: 569-577
  • Peer Reviewed
• [Journal Article] Complete genome sequence of the wild-type commensal Escherichia coil strain SE15, belonging to phylogenetic group B2. (2010)
  • Author(s): H.Toh, K.Oshima, A.Toyoda, Y.Ogura, T.Ooka, (他3名) K.Kurokawa, (他3名) T.Hayashi, M.Hattori
  • Journal Title: J.Bacteriol. 192(4) Pages: 1165-1166
  • Peer Reviewed
• [Journal Article] 細菌ゲム解析の進歩 (2010)
  • Author(s): 大岡唯柘, 林哲也
  • Journal Title: 日本臨床 68(8) Pages: 144-149
• [Journal Article] RNA polymerase trafficking in Bacillus subtilis cells. (2010)
  • Author(s): S.Ishikawa, et al.
  • Journal Title: J.Bacteriol. Volume: 192 Pages: 5778-5787
  • Peer Reviewed
• [Journal Article] NleC, a type III secretion protease, compromises NF-κB activation by targeting p65/RelA. (2010)
  • Author(s): H.Yen, et al.
  • Journal Title: PLoS Pathog. Volume: 6(12)
  • Peer Reviewed
• [Journal Article] Identification of candidate pathogens of papillomatous digital dermatitis in dairy cattle from quantitative 16S rRNA clonal analysis. (2010)
  • Author(s): T.Yano, et al.
  • Journal Title: Vet.Microbiol. Volume: 134(2-4) Pages: 352-362
  • Peer Reviewed
• [Journal Article] Genome Comparison and Phylogenetic Analysis of Orientia tsutsugamushi Strains. (2010)
  • Author(s): K.Nakayama, et al.
  • Journal Title: DNA Res. Volume: 17 Pages: 281-291
  • Peer Reviewed
• [Journal Article] New system for multilocus variable-number tandem-repeat analysis of the enterohemorrhagic Escherichia coli strains belonging to three major serogroups : O157, O26, and O111. (2010)
  • Author(s): H.Izumiya, et al.
  • Journal Title: Microbiol.Immunol. Volume: 54 Pages: 569-577
  • Peer Reviewed
• [Journal Article] VITCOMIC : visualization tool for taxonomic compositions of microbial communities based on 16S rRNA gene sequences. (2010)
  • Author(s): Mori H., et al.
  • Journal Title: BMC Bioinfo. Volume: 11 Pages: 332-332
  • Peer Reviewed
• [Journal Article] 細菌ゲノム解析の進歩 (2010)
  • Author(s): 大岡唯祐, 林哲也
  • Journal Title: 日本臨床 増刊号 遺伝子診断学(第2版)-遺伝子診断の進歩とゲノム治療の展望- Volume: 68(8) Pages: 144-149
• [Journal Article] Complete genome sequence of the wild-type commensal Escherichia coli strain SE15, belonging to phylogenetic group B2. (2010)
  • Author(s): H.Toh, et al.
  • Journal Title: J.Bacteriol. 192 Pages: 1165-1166
  • Peer Reviewed
• [Journal Article] Comparative genomics reveal the mechanism of the parallel evolution of 0157 and non-0157 enterohemorrhagic Escherichia coli. (2009)
  • Author(s): Y.Ogura, T.Ooka, (他7名), K.Kurokawa, T.Tobe, M.Hattori, T.Hayashi
  • Journal Title: Proc.Natl.Acad.Sci.USA 106(42) Pages: 17939-17944
  • Peer Reviewed
• [Journal Article] Enterohaemorrhagic Escherlchia coil serogroup 0111 inhibits NF-{Ikappal} B-dependent innate responses in a manner independent of a type III secreted OspG orthologue. (2009)
  • Author(s): R,Nobe, (他6名), T.Hayashi, E.Uswaid
  • Journal Title: Microbiology. 155 Pages: 3214-3225
  • Peer Reviewed
• [Journal Article] Development of a multiplex PCR-based rapid typing method for enterohemorrhagic Escherichia 0157 strains. (2009)
  • Author(s): T.Ooka, (他3名), K.Kurokawa, Y.Ogura, (他6名), T.Hayashi
  • Journal Title: J.Clin.Microbiol. 47(9) Pages: 2888-2894
  • Peer Reviewed
• [Journal Article] Pulsed-field gel electrophoresis profile changes resulting from spontaneous chromosomal deletions in enterohemorrhagic Escherichia coli 0157:H7 during passage in cattle. (2009)
  • Author(s): N.Yoshii, Y.Ogura, T.Hayashi, (他5名), M.Akiba
  • Journal Title: Appl.Environ.Microbiol. 75(17) Pages: 5719-5726
  • Peer Reviewed
• [Journal Article] Inference of the impact of insertion sequence (IS) elements on bacterial genome diversification through analysis of small-size structural polymorphisms in Escherichia coli 0157 genomes. (2009)
  • Author(s): T.Ooka, Y.Ogura, (他5名), T.Hayashi
  • Journal Title: Genome Res. 19 Pages: 1809-1816
  • Peer Reviewed
• [Journal Article] A precise reconstruction of the emergence and constrained radiations of Escherichia coll 0157 portrayed by backbone concatenomic analysis. (2009)
  • Author(s): S.R.Leopold, 他, Y.Ogura, A.Iguchi, T.Hayashi, 他, P.I.Tarr
  • Journal Title: Proc.Natl.Acad.Sci.USA. 106(21) Pages: 8713-8718
  • Peer Reviewed
• [Journal Article] The defective prophage pool of Escherichia coll 0157 : prophage-prophage interactions potentiate horizontal transfer of virulence determinants. (2009)
  • Author(s): Md.Asadulghani, Y.Ogura, T.Ooka, (他4名), T.Hayashi
  • Journal Title: PLoS Pathog. 5(5)
  • Peer Reviewed
• [Journal Article] Enterohemorrhagic Escherichia effector EspL2 induces actin microfilament aggregation through annexin 2 activation. (2009)
  • Author(s): )A.Miyahara, N.Nakanishi, T.Ooka, T.Hayashi, N.Sugimoto, T.Tobe
  • Journal Title: Cell Microbiol. 11(2) Pages: 337-350
  • Peer Reviewed
• [Journal Article] Regulation of virulence by buty rate sensing in enterohemorrhagic Escherichia coli. (2009)
  • Author(s): N.Nakanishi, 他, T.Hayashi, N.Sugimoto, T.Tobe
  • Journal Title: Microbiology 155 Pages: 521-530
  • Peer Reviewed
• [Journal Article] The complete genome sequence and comparative genome analysis of enteropathogenic E. coli 0127:H6 strain E2348/69. (2009)
  • Author(s): A.Iguchi, N.R.Thomson, Y.Ogura, D.Saunders, T.Ooka, 他, K.Kurokawa, 他, T.Hayashi, J.Parkhill, G.Frankel
  • Journal Title: J.Bacteriol. 191(1) Pages: 347-354
  • Peer Reviewed
• [Journal Article] ゲノム解析から見えてきた腸管出血性大腸菌の毒素及び病原因子の新知見 (2009)
  • Author(s): 小椋義俊, 大岡唯祐, 林哲也
  • Journal Title: 化学療法の領域 25(5) Pages: 767-777
• [Journal Article] Comparative genomics reveal the mechanism of the parallel evolution of O157 and non-O157 enterohemorrhagic Escherichia coli (2009)
  • Author(s): 小椋義俊, et al.
  • Journal Title: Proc.Natl.Acad.Sci.USA 106 Pages: 17939-17944
  • Peer Reviewed
• [Journal Article] Inference of the impact of insertion sequence(IS)elements on bacterial genome diversification through analysis of small-size structural polymorphisms in Escherichia coli O157 genomes (2009)
  • Author(s): 大岡唯祐, et al.
  • Journal Title: Genome Res. 19 Pages: 1809-1816
  • Peer Reviewed
• [Journal Article] Development of a multiplex PCR-based rapid typing method 1 for enterohemorrhagic Escherichia coli O157 strains (2009)
  • Author(s): 大岡唯祐, et al.
  • Journal Title: J.Clin.Microbiol. 47 Pages: 2888-2894
  • Peer Reviewed
• [Journal Article] Comparative genomic analyses of Streptococcus mutans provide insights into chromosomal shuffling and species-specific content (2009)
  • Author(s): F.Maruyama, et al.
  • Journal Title: BMC Genomics 10 Pages: 358-358
  • Peer Reviewed
• [Journal Article] Enterohaemorrhagic Escherichia coli serogroup O111 inhibits NF-{kappa}B-dependent innate responses in a manner independent of a type III secreted OspG orthologue (2009)
  • Author(s): R.Nobe, et al.
  • Journal Title: Microbiology 155 Pages: 3214-3225
  • Peer Reviewed
• [Journal Article] Identification of the site-specific DNA invertase responsible for the phase variation of SusC/SusD family outer membrane proteins in Bacteroides fragilis (2009)
  • Author(s): H.Nakayama-Imaohji, et al.
  • Journal Title: J.Bacteriol. 191 Pages: 6003-6011
  • Peer Reviewed
• [Journal Article] Pulsed-field gel electrophoresis profile changes resulting from spontaneous chromosomal deletions in enterohemorrhagic Escherichia coli O157:H7 during passage in cattle (2009)
  • Author(s): N.Yoshii, et al.
  • Journal Title: Appl.Environ.Microbiol. 75 Pages: 5719-5726
  • Peer Reviewed
• [Journal Article] A precise reconstruction of the emergence and constrained radiations of Escherichia coli O157 portrayed by backbone concatenomic analysis (2009)
  • Author(s): S.R.Leopold, et al.
  • Journal Title: Proc.Natl.Acad.Sci.USA 106 Pages: 8713-8718
  • Peer Reviewed
• [Journal Article] The defective prophage pool of Escherichia coli O157 : prophage-prophage interactions potentiate horizontal transfer of virulence determinants (2009)
  • Author(s): Md.Asadulghani, et al.
  • Journal Title: PLoS Pathog. 5
  • Peer Reviewed
• [Journal Article] Genome-organizing factors Top2 and Hmo1 prevent chromosome fragility at sites of S phase transcription (2009)
  • Author(s): R.Bermejo, et al.
  • Journal Title: Cell 138 Pages: 870-884
  • Peer Reviewed
• [Journal Article] ゲノム解析から見えてきた腸管出血性大腸菌の毒素及び病原因子の新知見 (2009)
  • Author(s): 小椋義俊, 大岡唯祐, 林哲也
  • Journal Title: 化学療法の領域 25 Pages: 767-777
• [Journal Article] メタゲノム研究の最前線-454とメタゲノム解析- (2009)
  • Author(s): 森宙史, 林哲也, 黒川顕
  • Journal Title: 蛋白質 核酸 酵素 54 Pages: 1264-1270
• [Journal Article] The complete genome sequence and comparative genome analysis of enteropathogenic E. coli O127 : H6 strain E2348/69 (2009)
  • Author(s): Iguchi, A., et al.
  • Journal Title: J. Bacteriol. 191 Pages: 347-354
  • Peer Reviewed
• [Journal Article] Simple broad-spectrum protocol using labiase for bacterial cell lysis to prepare genomic DNA for pulsed-field gel electrophoresis analysis. (2009)
  • Author(s): Oana, K., et al.
  • Journal Title: Microbiol. Immunol. 53 Pages: 45-48
  • Peer Reviewed
• [Journal Article] Regulation of virulence by buty rate sensing in enterohemorrhagic. Escherichia coli. (2009)
  • Author(s): Nakanishi, N., et al.
  • Journal Title: Microbiology 155 Pages: 521-530
  • Peer Reviewed
• [Journal Article] Enterohemorrhagic Escherichia coli effector EspL2 induces actin microfilament aggregation through annexin 2 activation. (2009)
  • Author(s): Miyahara, A., et al.
  • Journal Title: Cell. Microbiol. 11 Pages: 337-350
  • Peer Reviewed
• [Journal Article] Genetic heterogeneity among strains of Treponema phagedenis-like spirochetes isolated from dairy cattle with papillomatous digital dermatitis in Japan. (2009)
  • Author(s): Yano, T., et al.
  • Journal Title: J. Clin. Microbiol 47 Pages: 727-733
  • Peer Reviewed
• [Journal Article] Differential binding profiles of StpA in wild-type and hns mutant cells : a comparative analysis of cooperative partners by ChIP-chip analysis. (2009)
  • Author(s): Uyar, E., et al.
  • Journal Title: J. Bacteriol. 191 Pages: 2388-2391
  • Peer Reviewed
• [Journal Article] Complete genome sequence and comparative analysis of the wild-type commensal Escherichia coil strain SEll isolated from a healthy adult. (2008)
  • Author(s): K.Oshima, H.Toh, Y.Ogura, 他, T.Ooka, 他, T.Hayashi, K.Itoh, M.Hattori
  • Journal Title: DNA Res. 15(6) Pages: 375-386
  • Peer Reviewed
• [Journal Article] Systematic identification and sequence analysis of the genomic islands of the enteropathogenic Escherichia coli strain B171-8 by the combined use of Whole Genome PCR Scanning and fosmid mapping. (2008)
  • Author(s): Y.Ogura, 他, K.Kurokawa, 他, T.Ooka, 他, T.Hayashi
  • Journal Title: J.Bacteriol. 190(21) Pages: 6948-6960
  • Peer Reviewed
• [Journal Article] The whole-genome sequencing of the obligate intracellular bacterium Orientia tsutsugamushi revealed massive gene amplification during reductive genome evolution. (2008)
  • Author(s): Nakayama, K., et al.
  • Journal Title: DNA Res. 15 Pages: 185-199
  • Peer Reviewed
• [Journal Article] Determination of the Genome Sequence of Porphyromonas gingivalis Strain ATCC 33277 and Genomic Comparison with Strain W83 Revealed Extensive Genome Rearrangements in P. gingivalis (2008)
  • Author(s): Naito, M., et al.
  • Journal Title: DNA Res. 15 Pages: 215-225
  • Peer Reviewed
• [Journal Article] Systematic identification and sequence analysis of the genomic islands of the enteropathogenic Escherichia coli strain B171-8 by the combined use of Whole Genome PCR Scanning and fosmid mapping. (2008)
  • Author(s): Ogura, Y., et al.
  • Journal Title: J. Bacteriol. 190 Pages: 6948-6960
  • Peer Reviewed
• [Journal Article] Complete Genome Sequence and Comparative Analysis of the Wild-type Commensal Escherichia coli Strain SEll Isolated from a Healthy Adult (2008)
  • Author(s): Oshima, K., et al.
  • Journal Title: DNA Res. 15 Pages: 375-386
  • Peer Reviewed
• [Journal Article] メタゲノム解析一微生物集団のゲノムをまとめて解析するということ-. (2008)
  • Author(s): 林哲也
  • Journal Title: 現代化学 444 Pages: 40-42
• [Journal Article] Identification of candidate pathogens of papillomatous digital dermatitis in dairy cattle from quantitative 16S rRNA clonal analysis
  • Author(s): T.Yano, et al.
  • Journal Title: Vet.Microbiol. (in press)
  • Peer Reviewed
• [Journal Article] The defective prophage pool of Escherichia coli O157 : prophage-prophage interactions potentiate horizontal transfer of virulence determinants.
  • Author(s): Asadulghani, et al.
  • Journal Title: PLoS Pathog. in press
  • Peer Reviewed
• [Journal Article] Molecular analysis of an extrachromosomal element encoding the C2 toxingene discovered in Clostridium botulinum type C.
  • Author(s): Sakaguchi, Y., et al.
  • Journal Title: J Bacteriol. in press
  • Peer Reviewed
• [Journal Article] メタゲノム研究の最前線
  • Author(s): 森宙史, 他
  • Journal Title: 蛋白質 核酸 酵素 (印刷中)
• [Presentation] R.heilongjiangensisのゲノム解析, O.tsutsugamushi新規分離株のMSL解析 (2011)
  • Author(s): 中山恵介, 林哲也
  • Organizer: 第3回日本リケッチア症臨床研究会・第17回リケッチア研究会合同研究発表会
  • Place of Presentation: 大津市
• [Presentation] メタゲノム解析から見えるマリアナ海溝最深部の優先種ゲノム (2011)
  • Author(s): 西真郎, 他
  • Organizer: 第5回日本ゲノム微生物学会年会
  • Place of Presentation: 仙台市
• [Presentation] ウシ趾乳頭腫症由来Treponemaphagedenisのゲノム特性と比較ゲノム解析 (2011)
  • Author(s): 後藤恭宏, 他
  • Organizer: 第5回日本ゲノム微生物学会年会
  • Place of Presentation: 仙台市
• [Presentation] 病原性大腸菌O157の志賀毒素産生性に関わる遺伝的特性の解明 (2011)
  • Author(s): 小椋義俊, 他
  • Organizer: 第5回日本ゲノム微生物学会年会
  • Place of Presentation: 仙台市
• [Presentation] ゲノム的視点に基づいた超深海帯微生物代謝系の解析 (2011)
  • Author(s): 坪内泰志, 他
  • Organizer: 日本農芸化学会2010年度大会
  • Place of Presentation: 京都
• [Presentation] Boydetella bronchisepticaS798株のゲノム解析 (2011)
  • Author(s): 林哲也
  • Organizer: 第1回ボルデテラ研究会
  • Place of Presentation: 東京(招待講演)
• [Presentation] ゲノム情報立脚型社会 (2010)
  • Author(s): 黒川顕
  • Organizer: 日本生体医工学会バイオメクフォーラム
  • Place of Presentation: 大阪
  • Year and Date: 2010-12-11
• [Presentation] ゲノムからメタゲノムへ (2010)
  • Author(s): 黒川顕
  • Organizer: 千里ライフサイエンスセミナー
  • Place of Presentation: 大阪
  • Year and Date: 2010-10-22
• [Presentation] ゲノムからメタゲノムへ (2010)
  • Author(s): 黒川顕
  • Organizer: 第12回日本進化学会
  • Place of Presentation: 東京
  • Year and Date: 2010-08-03
• [Presentation] ゲノムからメタゲノムへ (2010)
  • Author(s): 黒川顕
  • Organizer: 第55回日本ブドウ球菌研究会
  • Place of Presentation: 東京
  • Year and Date: 2010-07-21
• [Presentation] 新興感染症菌ヘリコバクター・シネディと心臓血管疾患との関連性(熊大・小山耕太) (2010)
  • Author(s): 林哲也
  • Organizer: 第3回感染病態研究フロンティア
  • Place of Presentation: 横浜市(追加発言)
  • Year and Date: 2010-07-10
• [Presentation] 病原性大腸菌のゲノム解析からみた細菌の進化・多様化と遺伝子水平伝播の役割 (2010)
  • Author(s): 林哲也
  • Organizer: Advanced Seminar Series on Microbiology and Immunology
  • Place of Presentation: Osaka
  • Year and Date: 2010-01-19
• [Presentation] (Invited Speaker) : Genomic view on the diversification and evolution of enterohemorrhagic Escherichia coil (EHEC). (2010)
  • Author(s): T.Hayashi
  • Organizer: The third China-Japan Science Forum, Diseases Prevention and Control.
  • Place of Presentation: Wuhan, China.
• [Presentation] 大腸菌O55/O157系統における多様な溶血活性の解析 (2010)
  • Author(s): 村瀬一典, 他
  • Organizer: 第14回腸管出血性大腸菌感染症研究会
  • Place of Presentation: 宮崎市
• [Presentation] 国内で分離されるeae遺伝子陽性大腸菌の系統解析 (2010)
  • Author(s): 大岡唯祐, 他
  • Organizer: 第14回腸管出血性大腸菌感染症研究会
  • Place of Presentation: 宮崎市
• [Presentation] 牛趾乳頭腫症由来Treponema phagedenisの上皮細胞侵入機構の解析 (2010)
  • Author(s): 三澤尚明, 他
  • Organizer: 第63回日本細菌学会九州支部総会
  • Place of Presentation: 宮崎市
• [Presentation] 種々の大腸菌株における溶血毒素遺伝子の保有とその活性の解析 (2010)
  • Author(s): 村瀬一典, 他
  • Organizer: 第4回日本ゲノム微生物学会若手の会
  • Place of Presentation: 神戸
• [Presentation] 病原性大腸菌0157:H7の志賀毒素変換ファージの比較解析 (2010)
  • Author(s): 小椋義俊, 他
  • Organizer: 第4回ゲノム微生物学会年会
  • Place of Presentation: 福岡
• [Presentation] 種々の大腸菌株を用いた溶血毒素遺伝子の解析 (2010)
  • Author(s): 村瀬一典, 他
  • Organizer: 第4回ゲノム微生物学会年会
  • Place of Presentation: 福岡
• [Presentation] 病原性大腸菌における3型分泌系(T3SS)の進化 (2010)
  • Author(s): 大岡唯祐, 他
  • Organizer: 第4回ゲノム微生物学会年会
  • Place of Presentation: 福岡
• [Presentation] Genomic view on the diversification and evolution of enterohemorrhagic Escherichia coli(EHEC) (2010)
  • Author(s): 林哲也(Invited Speaker)
  • Organizer: The third China-Japan Science Forum, Diseases Prevention and Control
  • Place of Presentation: Wuhan, China
• [Presentation] IS621 fingerprinting of bovine and human O26:H11 enterohemorrhagic Escherichia coli (2010)
  • Author(s): J.Mainil, et al.
  • Organizer: 第83回日本細菌学会総会
  • Place of Presentation: 横浜
• [Presentation] 病原大腸菌が産生する細胞壊死因子CNF3をコードするプラスミドの性状解析 (2010)
  • Author(s): 久恒順三, 他
  • Organizer: 第83回日本細菌学会総会
  • Place of Presentation: 横浜
• [Presentation] G型ボツリヌス毒素遺伝子をコードするプラスミドの解析 (2010)
  • Author(s): 阪口義彦, 他
  • Organizer: 第83回日本細菌学会総会
  • Place of Presentation: 横浜
• [Presentation] Functional analyses of the late region genes of Stx2 phage from O157:H7 Sakai (2010)
  • Author(s): Md.R.Islam, et al.
  • Organizer: 第83回日本細菌学会総会
  • Place of Presentation: 横浜
• [Presentation] 種々の大腸菌株における溶血毒素遺伝子の保有状況とその活性 (2010)
  • Author(s): 村瀬一典, 他
  • Organizer: 第83回日本細菌学会総会
  • Place of Presentation: 横浜
• [Presentation] Orientia tsutsugamushi に存在が予想されるペプチドグリカンの解析 (2010)
  • Author(s): 中山恵介, 他
  • Organizer: 第83回日本細菌学会総会
  • Place of Presentation: 横浜
• [Presentation] 腸管出血性大腸菌(EHEC)及び腸管病原性大腸菌(EPEC)における3型分泌系(T3SS)の進化 (2010)
  • Author(s): 大岡唯祐, 他
  • Organizer: 第83回日本細菌学会総会
  • Place of Presentation: 横浜
• [Presentation] 腸管出血性大腸菌O157の志賀毒素ファージの比較解析 (2010)
  • Author(s): 小椋義俊, 他
  • Organizer: 第83回日本細菌学会総会
  • Place of Presentation: 横浜
• [Presentation] (Invited Speaker) : Genomic view on the parallel evolution of enterohemorrhagic Escherichia coli strains. (2009)
  • Author(s): T.Hayashi
  • Organizer: The 4^<th> Nagasaki Symposium on Tropical and Emerging Infectious Diseases
  • Place of Presentation: Nagasaki.
  • Year and Date: 2009-11-26
• [Presentation] Genomic view on the parallel evolution of enterohemorrhagic Escheri chia coli strains (2009)
  • Author(s): 林哲也(Invited Speaker)
  • Organizer: The 4^<th> Nagasaki Symposium on Tropical and Emerging Infectious Diseases
  • Place of Presentation: Nagasaki
  • Year and Date: 2009-11-26
• [Presentation] 大腸菌055/0157系統における溶血因子の解析 (2009)
  • Author(s): 村瀬一典, 他
  • Organizer: 若手研究者育成のためのワークショップ～若手コロセウム(III)in 宮崎～
  • Place of Presentation: 宮崎
  • Year and Date: 2009-10-26
• [Presentation] 腸管出血性大腸菌(EHEC)及び腸管病原性大腸菌(EPEC)におけるIII型分泌系コード領域(LEE)の構造比較解析 (2009)
  • Author(s): 大岡唯祐, 他
  • Organizer: 若手研究者育成のためのワークショップ～若手コロセウム(III)in 宮崎～
  • Place of Presentation: 宮崎
  • Year and Date: 2009-10-26
• [Presentation] (Invited Speaker) : Whole genome sequencing analysis of 026, 0111, and 0103 EHEC. (2009)
  • Author(s): T.Hayashi
  • Organizer: VTEC2009 (7^<th> International Symposium on Shiga Toxin (Verocytotoxin)?-Producing Escherichia coli Infections)
  • Place of Presentation: Buenos Aires.
  • Year and Date: 2009-05-12
• [Presentation] Whole genome sequencing analysis of O26, O111, and O103 EHEC (2009)
  • Author(s): 林哲也(Invited Speaker)
  • Organizer: VTEC2009
  • Place of Presentation: Buenos Aires
  • Year and Date: 2009-05-12
• [Presentation] Variation of hemolytic activities in the O55/O157 Escherichia coli lineage (2009)
  • Author(s): 村瀬一典, et al.
  • Organizer: VTEC2009
  • Place of Presentation: Buenos Aires
  • Year and Date: 2009-05-12
• [Presentation] Fosmid mapping 法と Whole genome PCR scanning 法を用いた腸管病原性大腸菌B171株の genomic island の網羅的な同定と配列決定 (2009)
  • Author(s): 小椋義俊, 他
  • Organizer: 日本分子生物学会 第9回春季シンポジウム
  • Place of Presentation: 宮崎
  • Year and Date: 2009-05-11
• [Presentation] オリエンチア属細菌間における比較ゲノム解析 (2009)
  • Author(s): 中山恵介, 他
  • Organizer: 日本分子生物学会 第9回春季シンポジウム
  • Place of Presentation: 宮崎
  • Year and Date: 2009-05-11
• [Presentation] 腸管出血性大腸菌(EHEC)及び腸管病原性大腸菌(EPEC)におけるLEE領域の多様性解析 (2009)
  • Author(s): 大岡唯祐, 他
  • Organizer: 日本分子生物学会 第9回春季シンポジウム
  • Place of Presentation: 宮崎
  • Year and Date: 2009-05-11
• [Presentation] Functional analyses of unknown genes of Stx2 phage(Sp5)from O157 : H7 Sakai (2009)
  • Author(s): Md.R.Islam, et al.
  • Organizer: 日本分子生物学会 第9回春季シンポジウム
  • Place of Presentation: 宮崎
  • Year and Date: 2009-05-11
• [Presentation] Generation of new Stx1 phages by recombination of Stx2 and Stx1 phage genomes (2009)
  • Author(s): Md.Asadulghani, et al.
  • Organizer: 日本分子生物学会 第9回春季シンポジウム
  • Place of Presentation: 宮崎
  • Year and Date: 2009-05-11
• [Presentation] IS detection in O26 enterohemorrhagic Escherichia coli (2009)
  • Author(s): J.Mainil, et al.
  • Organizer: 日本分子生物学会 第9回春季シンポジウム
  • Place of Presentation: 宮崎
  • Year and Date: 2009-05-11
• [Presentation] The complete genome sequence and comparative genome analysis of EPEC O127 : H6 strain E2348/69. (2009)
  • Author(s): 井口純, 他
  • Organizer: 第82回日本細菌学会総会
  • Place of Presentation: 名古屋
  • Year and Date: 2009-03-12
• [Presentation] Identification and sequence analysis of the genomic islands of EPEC B 171by fosmid mapping (2009)
  • Author(s): 小椋義俊, 他
  • Organizer: 第82回日本細菌学会総会
  • Place of Presentation: 名古屋
  • Year and Date: 2009-03-12
• [Presentation] Generation of new Stx1 phages by recombination of Stx2 and Stx1 phage genomes (2009)
  • Author(s): Asadulghani, Md., et al.
  • Organizer: 第82回日本細菌学会総会
  • Place of Presentation: 名古屋
  • Year and Date: 2009-03-12
• [Presentation] Systematic functional analyses of unknown genes of Stx2 phage from O157 : H7 Sakai. (2009)
  • Author(s): Islam, Md. R., et al.
  • Organizer: 第82回日本細菌学会総会
  • Place of Presentation: 名古屋
  • Year and Date: 2009-03-12
• [Presentation] 腸管出血性大腸菌(EHEC)及び腸管病原性大腸菌(EPEC)におけるLEE領域の多様性解析 (2009)
  • Author(s): 大岡唯祐, 他
  • Organizer: 第82回日本細菌学会総会
  • Place of Presentation: 名古屋
  • Year and Date: 2009-03-12
• [Presentation] 大腸菌O55/O157系統における溶血活性のバリエーション (2009)
  • Author(s): 村瀬一典, 他
  • Organizer: 第82回日本細菌学会総会
  • Place of Presentation: 名古屋
  • Year and Date: 2009-03-12
• [Presentation] STECにおいてISの転移に関与する因子の同定 (2009)
  • Author(s): 楠本正博, 他
  • Organizer: 第82回日本細菌学会総会
  • Place of Presentation: 名古屋
  • Year and Date: 2009-03-12
• [Presentation] 腸管出血性大腸菌O157 : H7における核様体構造変化による病原性遺伝子発現活性化 (2009)
  • Author(s): 戸邉亨, 他
  • Organizer: 第82回日本細菌学会総会
  • Place of Presentation: 名古屋
  • Year and Date: 2009-03-12
• [Presentation] 腸管病原性大腸菌(EPEC)E2348/69株のゲノム解析 (2009)
  • Author(s): 井口純, 他
  • Organizer: 第3回ゲノム微生物学会年会
  • Place of Presentation: 東京
  • Year and Date: 2009-03-06
• [Presentation] Fosmid mapping法とWhole genome PCR scanning法を用いた腸管病原性大腸菌B171株のgenomic islandの網羅的な同定と配列決定 (2009)
  • Author(s): 小椋義俊, 他
  • Organizer: 第3回ゲノム微生物学会年会
  • Place of Presentation: 東京
  • Year and Date: 2009-03-06
• [Presentation] Systematic functional analyses of unknown genes of Stx2 phage from O157 : H7 Sakai (2009)
  • Author(s): Islam, Md. R., et al.
  • Organizer: 第3回ゲノム微生物学会年会
  • Place of Presentation: 東京
  • Year and Date: 2009-03-06
• [Presentation] rRNA遺伝子を用いたヒト常在細菌フローラの多様性解析 (2009)
  • Author(s): 宮崎菜穂, 他
  • Organizer: 第3回ゲノム微生物学会年会
  • Place of Presentation: 東京
  • Year and Date: 2009-03-06
• [Presentation] 大規模な細菌種組成解析における新型シークエンサーの有効性の検証 (2009)
  • Author(s): 森宙史, 他
  • Organizer: 第3回ゲノム微生物学会年会
  • Place of Presentation: 東京
  • Year and Date: 2009-03-06
• [Presentation] Generation of new Stxl phages in E. coli 0157 by recombination of Stx2 and Stx1 phage genomes. (2009)
  • Author(s): Asadulghani, Md., et al.
  • Organizer: 第3回ゲノム微生物学会年会
  • Place of Presentation: 東京
  • Year and Date: 2009-03-05
• [Presentation] 病原性大腸菌のIII型分泌システムをコードするLEE領域に関する多様性解析 (2009)
  • Author(s): 大岡唯祐, 他
  • Organizer: 第3回ゲノム微生物学会年会
  • Place of Presentation: 東京
  • Year and Date: 2009-03-05
• [Presentation] 大腸菌055/0157系統における溶血活性の多様性 (2009)
  • Author(s): 村瀬一典, 他
  • Organizer: 第3回ゲノム微生物学会年会
  • Place of Presentation: 東京
  • Year and Date: 2009-03-05
• [Presentation] ヒト腸内メタゲノムと既知の大腸菌ゲノムの比較解析 (2009)
  • Author(s): 伊藤世士洋, 他
  • Organizer: 第3回ゲノム微生物学会年会
  • Place of Presentation: 東京
  • Year and Date: 2009-03-05
• [Presentation] 病原菌ゲノム解析の新しい流れ : 同一菌種内での多菌株比較解析と常在菌叢のメタゲノム解析. (2009)
  • Author(s): 林哲也 (教育講演)
  • Organizer: 第43回緑膿菌感染症研究会
  • Place of Presentation: 京都
  • Year and Date: 2009-02-06
• [Presentation] Genomic view on the parallel evolution of enteropathogenic Escherichia coli strains (2009)
  • Author(s): Hayashi, T. (Invited Speaker)
  • Organizer: INRA-JSPS Workshop
  • Place of Presentation: Paris
  • Year and Date: 2009-01-29
• [Presentation] (Invited Speaker) : Genomic view on the parallel evolution of enteropathogenic Escherichia coli strains. (2009)
  • Author(s): T.Hayashi
  • Organizer: INRA?JSPS Workshop, Jan.
  • Place of Presentation: Paris.
• [Presentation] Species-specific evolutionary strategies revealed from genome and transcriptome of Streptococcus pyogenes and S. mutans (2009)
  • Author(s): F.Maruyama, et al.
  • Organizer: Proka GENOMICS 2009
  • Place of Presentation: Goettingen, Germany
• [Presentation] A visualization tool for comparative community analyses using nearest relatives (2009)
  • Author(s): H.Mori, et al.
  • Organizer: Proka GENOMICS 2009
  • Place of Presentation: Goettingen, Germany
• [Presentation] Metagenomics analysis using Next-generation sequencing technology (2009)
  • Author(s): K.Kurokawa
  • Organizer: 第32回日本分子生物学会年会シンポジウム
  • Place of Presentation: 横浜
• [Presentation] メタゲノムインフォマティクス (2009)
  • Author(s): 黒川顕
  • Organizer: 日本農芸化学会2009年大会シンポジウム
  • Place of Presentation: 福岡
• [Presentation] Functional variation analysis of human gut metagenomic data (2008)
  • Author(s): Nishida, K., et al.
  • Organizer: Metagenomics 2008
  • Place of Presentation: San Diego
  • Year and Date: 2008-11-04
• [Presentation] (Invited Speaker) : Genome analysis of 0157 and non-0157 EHEC atrains. (2008)
  • Author(s): T.Hayashi
  • Organizer: The 9^<th> Korea-Japan International Symposium on Microbiology
  • Place of Presentation: Seoul, Korea.
  • Year and Date: 2008-10-17
• [Presentation] Genome analysis of 0157 and non-0157 EHEC atrains (2008)
  • Author(s): Hayashi, T. (Invited Speaker)
  • Organizer: The 9^<th> Korea-Japan International Symposium on Microbiology
  • Place of Presentation: Seoul
  • Year and Date: 2008-10-17
• [Presentation] 次世代シークエンサーによるメタゲノム解析の可能性 (2008)
  • Author(s): 黒川顕
  • Organizer: 第288回CBI学会研究講演会
  • Place of Presentation: 東京
  • Year and Date: 2008-08-22
• [Presentation] Systematic identification and sequence analysis of genomic islands of enteropathogenic Escherichia coli strain B171-8 by the combinational use of Whole Genome PCR Scanning and fosmid mapping. (2008)
  • Author(s): Ogura, Y., et al.
  • Organizer: 日米コレラ日本側総会
  • Place of Presentation: 大阪
  • Year and Date: 2008-07-30
• [Presentation] 病原性大腸菌と非病原性大腸菌のゲノム比較 (2008)
  • Author(s): 林哲也(シンポジスト)
  • Organizer: 第12回腸内細菌学会
  • Place of Presentation: 東京
  • Year and Date: 2008-06-13
• [Presentation] Comparative metagenomics revealed commonly enriched gene sets in Human intestine. (2008)
  • Author(s): Kurokawa, K., et al.
  • Organizer: The Biology of Genomes
  • Place of Presentation: CSHL アメリカ ニューヨーク
  • Year and Date: 2008-05-05
• [Presentation] Extreme sequence conservation of 16S rRNA gene copies (2008)
  • Author(s): Mori, H., et al
  • Organizer: The Biology of Genomes
  • Place of Presentation: CSHL アメリカ ニューヨーク
  • Year and Date: 2008-05-05
• [Presentation] Systematic identification and sequence analysis of the genomic islands of the enteropathogenic Escherichia coli strain B171-8 by the combined use of Whole Genome PCR Scanning and fosmid mapping (2008)
  • Author(s): Ogura, Y., et al.
  • Organizer: 第43回日米コレラ細菌性腸管感染症専門部会
  • Place of Presentation: Fukuoka
• [Book] 難培養微生物研究の最新技術II (2010)
  • Author(s): 森宙史, 丸山史人, 黒川顕
  • Total Pages: 287
  • Publisher: シーエムシー出版
• [Book] メタゲノム解析技術の最前線 (2010)
  • Author(s): 森宙史, 丸山史人, 黒川顕
  • Total Pages: 231
  • Publisher: シーエムシー出版
• [Book] 難培養微生物研究の最新技術II-ゲノム解析を中心とした最前線と将来展望- (2010)
  • Author(s): 森宙史, 丸山史人, 黒川顕
  • Total Pages: 287
  • Publisher: シーエムシー出版
• [Book] 薬学領域の病原微生物学・感染症学・化学療法学 第2版,(細困グノムど遺伝十構造、笈異と修復、発現調節(第1編 微生物学総論 第2章細菌学総論))(西島正弘, 後藤直正 編集)PP.46-74 (2009)
  • Author(s): 林哲也
  • Total Pages: 416
  • Publisher: 廣川書店
• [Book] 薬学領域の病原微生物学・感染症学・化学療法学第2版, (西島正弘, 後藤直正 編集) (2009)
  • Author(s): 林哲也
  • Total Pages: 416
  • Publisher: 廣川書店
• [Book] 実験医学4月増刊号「バイオデータベースとソフトウェア最前線」 (2008)
  • Author(s): 黒川顕, 他
  • Total Pages: 225
  • Publisher: 羊土社
• [Book] 医科細菌学 改訂第4版 (編集 : 笹川千尋、林哲也) (2008)
  • Author(s): 林哲也
  • Total Pages: 430
  • Publisher: 南江堂