Search for H. pylori genes and epigenetic status by Pacbio decoding

• Project/Area Number: 17H04666
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Single-year Grants
• Section: 海外学術
• Research Field: Gastroenterology
• Research Institution: Kyorin University
• Principal Investigator: Kobayashi Ichizo 杏林大学, 医学部, 非常勤講師 (30126057)
• Co-Investigator(Kenkyū-buntansha): 神谷 茂 杏林大学, 保健学部, 教授 (10177587) ; 矢原 耕史 国立感染症研究所, 薬剤耐性研究センター, 主任研究官 (70542356)
• Project Period (FY): 2017-04-01 – 2020-03-31
• Project Status: Completed (Fiscal Year 2019)
• Budget Amount: ¥16,120,000 (Direct Cost: ¥12,400,000、Indirect Cost: ¥3,720,000); Fiscal Year 2019: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000); Fiscal Year 2018: ¥7,020,000 (Direct Cost: ¥5,400,000、Indirect Cost: ¥1,620,000); Fiscal Year 2017: ¥7,540,000 (Direct Cost: ¥5,800,000、Indirect Cost: ¥1,740,000)
• Keywords: 胃がん / 細菌発がん / ピロリ菌 / 細菌GWAS / 細菌ゲノム / 集団ゲノム / 外膜タンパク / トランスポーター / メチローム / エピゲノム進化 / GWAS / 遺伝子発現ネットワーク / Pacbio / 適応進化 / エピゲノム / ゲノム

Outline of Final Research Achievements

We compared H. pylori genomes from all over the world and identified genome/protein sequence polymorphisms associated with gastric cancer (stomach cancer). We mapped these on the protein structure and predicted their probable functions. Our results revealed many bacterial proteins likely involved in carcinogenesis. Our research demonstrated power of bacterial population genomics in a highly-recombining bacterium. Through these efforts, we formed a network of research on H. pylori population genomics.

Academic Significance and Societal Importance of the Research Achievements

(1) 細菌発がんに関わる細菌側のタンパクの候補を、多数明らかにした。これは、胃がんの機構の解明への道を開く。さらに、ヒト細菌叢（マイクロバイオーム）による発がんの機構の理解に繋がる。(2) ゲノム多様性と相同組換えの高い細菌での、GWASなどの多ゲノム比較法による機能解析のパワーを示した。これは、他の同様な生物へのGWASなどの適用に繋がる。(3) 胃がん予防治療の新薬・ワクチン開発の標的、胃がん十二指腸診断のマーカー候補を、多数明らかにした。これは、世界からの胃がんの撲滅に繋がる。(4) これらの研究の過程で、日米欧中を含む国際的な研究ネットワークを作った。

Research Products

• [Int'l Joint Research] National Cancer Institute/Vanderbilt University/NCBI(米国)
• [Int'l Joint Research] China CDC/Pasteur Shanghai/（地方の研究機関）(中国)
• [Int'l Joint Research] Karolinska Institute(スウェーデン)
• [Int'l Joint Research] Universidade de Lisboa, Lisbon/National Institute of Health(ポルトガル)
• [Int'l Joint Research] University of Bath/University of Warwick, Coventry(英国)
• [Int'l Joint Research]
• [Int'l Joint Research] National Cancer Institute (NIH)/Vanderbilt University/New England Biolabs(米国)
• [Int'l Joint Research] China CDC/中国疾病予防控制中心/Beijing University(中国)
• [Int'l Joint Research] University of Bath/University of Warwick(英国)
• [Int'l Joint Research] Yonsei University, Dental School(韓国)
• [Int'l Joint Research] Karolinska Institutet(スウェーデン)
• [Int'l Joint Research]
• [Int'l Joint Research] NCI/Vanderbilt University/NYU(米国)
• [Int'l Joint Research] Institut Pasteur/University of Paris-Saclay/INRA(France)
• [Int'l Joint Research] China CDC(China)
• [Int'l Joint Research] IISc/NICED/JNCASR(India)
• [Int'l Joint Research] University of Lisbon/INSA(Portugal)
• [Int'l Joint Research]
• [Journal Article] Serum Pepsinogen Values in Japanese Junior High School Students With Reference to <i>Helicobacter Pylori</i> Infection (2020)
  • Author(s): Okuda M, Lin Y, Mabe K, Kato M, Osaki T, Miyamoto R, Okumura A, Kamiya S, Kikuchi S.
  • Journal Title: Journal of Epidemiology Volume: 30 Issue: 1 Pages: 30-36
  • DOI: 10.2188/jea.JE20180119
  • NAID: 130007782484
  • ISSN: 0917-5040, 1349-9092
  • Year and Date: 2020-01-05
  • Peer Reviewed / Open Access
• [Journal Article] Acanthamoeba castellanii supports extracellular survival of Helicobacter pylori in co-culture (2020)
  • Author(s): Hojo Fuhito、Osaki Takako、Yonezawa Hideo、Hanawa Tomoko、Kurata Satoshi、Kamiya Shigeru
  • Journal Title: Journal of Infection and Chemotherapy Volume: in press Issue: 9 Pages: 946-954
  • DOI: 10.1016/j.jiac.2020.04.016
  • Peer Reviewed
• [Journal Article] Detection of DNA double-strand breaks by pulsed-field gel electrophoresis of circular bacterial chromosomes (2020)
  • Author(s): Ichizo Kobayashi, Katsuhiro Hanada
  • Journal Title: Methods in Molecular Biology (DNA Electrophoresis: Methods and Protocols) Volume: 2119 Pages: 145-154
  • DOI: 10.1007/978-1-0716-0323-9_13
  • ISBN: 9781071603222, 9781071603239
  • Peer Reviewed
• [Journal Article] Enhanced infectivity of strains of Helicobacter pylori isolated from children compared with parental strains (2019)
  • Author(s): Zaman Cynthia、Osaki Takako、Furuta Yoshikazu、Hojo Fuhito、Yonezawa Hideo、Konno Mutsuko、Kurata Satoshi、Hanawa Tomoko、Kamiya Shigeru
  • Journal Title: Journal of Medical Microbiology Volume: 68 Issue: 4 Pages: 633-641
  • DOI: 10.1099/jmm.0.000918
  • Peer Reviewed / Open Access
• [Journal Article] Effect of Helicobacter pylori biofilm formation on susceptibility to amoxicillin, metronidazole and clarithromycin. (2019)
  • Author(s): Yonezawa H, Osaki T, Hojo F, Kamiya S
  • Journal Title: Microb Pathog Volume: 132 Pages: 30449-8
  • DOI: 10.1016/j.micpath.2019.04.030
  • Peer Reviewed
• [Journal Article] Analysis of the colonic mucosa associated microbiota (MAM) using brushing samples during colonic endoscopic procedures (2019)
  • Author(s): Matsumoto Hiroshi、Kuroki Yasutoshi、Higashi Seiya、Goda Kyosuke、Fukushima Shinya、Katsumoto Ryo、Oosawa Motoyasu、Murao Takahisa、Ishii Manabu、Oka Kentaro、Takahashi Motomichi、Osaki Takako、Kamiya Shigeru、Shiotani Akiko
  • Journal Title: Journal of Clinical Biochemistry and Nutrition Volume: 65 Issue: 2 Pages: 132-137
  • DOI: 10.3164/jcbn.19-3
  • NAID: 130007700222
  • ISSN: 0912-0009, 1880-5086
  • Peer Reviewed / Open Access
• [Journal Article] Role of probiotics in eradication therapy for Helicobacter pylori infection. (2019)
  • Author(s): Kamiya S, Yonezawa H, Osaki T
  • Journal Title: Adv Exp Med Biol Volume: - Pages: 243-255
  • DOI: 10.1007/5584_2019_369
  • ISBN: 9783030219154, 9783030219161
  • Peer Reviewed
• [Journal Article] ピロリ菌研究の最先端：HPI-2018 に参加して (2019)
  • Author(s): 小林一三
  • Journal Title: Helicobacter Research (ISBN: 978-4-86550-401-9) Volume: 23 Pages: 40-43
• [Journal Article] ラテンアメリカの「ピロリ菌と胃がん」研究 (2019)
  • Author(s): 小林一三
  • Journal Title: 日本ヘリコバクター学会誌 Volume: 20 Pages: 123-127
• [Journal Article] Reconsidering plasmid maintenance factors for computational plasmid design (2019)
  • Author(s): Yano H, Shintani M, Tomita M, Suzuki H, and Oshima T
  • Journal Title: Comput. Struct. Biotechnol. J. Volume: 17 Pages: 70-81
  • DOI: 10.1016/j.csbj.2018.12.001
  • Peer Reviewed / Open Access
• [Journal Article] ピロリ菌研究の最先端：HPI-2018 に参加して (2019)
  • Author(s): 小林一三
  • Journal Title: Helicobacter Research Volume: 00 Pages: 000-000
• [Journal Article] Influence of Intestinal Indigenous Microbiota on Intrafamilial Infection by Helicobacter pylori in Japan. (2018)
  • Author(s): Osaki T, Zaman C, Yonezawa H, Lin Y, Okuda M, Nozaki E, Hojo F, Kurata S, Hanawa T, Kikuchi S, Kamiya S.
  • Journal Title: Front Immunol. Volume: 9 Pages: 287-287
  • DOI: 10.3389/fimmu.2018.00287
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Evaluating the origin and virulence of a Helicobacter pylori cagApositive strain isolated from a non-human primate (2018)
  • Author(s): Kana Hashi, Chihiro Imai, Koji Yahara, Kamrunnesa Tahmina, Takeru Hayashi, Takeshi Azuma, Takako Miyabe-Nishiwaki, Hideyuki Sato, Masao Matsuoka, Sachi Niimi, Munehiro Okamoto, Masanori Hatakeyama
  • Journal Title: Scientific Reports Volume: 8 Issue: 1 Pages: 15981-15981
  • DOI: 10.1038/s41598-018-34425-4
  • NAID: 120006539613
  • Peer Reviewed / Open Access
• [Journal Article] Automated detection of outbreaks of antimicrobial-resistant bacteria in Japan (2018)
  • Author(s): Tsutsui A.、Yahara K.、Clark A.、Fujimoto K.、Kawakami S.、Chikumi H.、Iguchi M.、Yagi T.、Baker M.A.、O'Brien T.、Stelling J.
  • Journal Title: Journal of Hospital Infection Volume: pii: S0195-6701(18) Issue: 2 Pages: 30540-1
  • DOI: 10.1016/j.jhin.2018.10.005
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Investigation of recombination-intense viral groups and their genes in the Earth’s virome (2018)
  • Author(s): Meier-Kolthoff Jan P.、Uchiyama Jumpei、Yahara Hiroko、Paez-Espino David、Yahara Koji
  • Journal Title: Scientific Reports Volume: 8 Issue: 1 Pages: 11496-11496
  • DOI: 10.1038/s41598-018-29272-2
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Macroevolution of gastric Helicobacter species unveils interspecies admixture and time of divergence (2018)
  • Author(s): Smet Annemieke、Yahara Koji、Rossi Mirko、Tay Alfred、Backert Steffen、Armin Ensser、Fox James G.、Flahou Bram、Ducatelle Richard、Haesebrouck Freddy、Corander Jukka
  • Journal Title: The ISME Journal Volume: 12 Issue: 10 Pages: 2518-2531
  • DOI: 10.1038/s41396-018-0199-5
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] A GWAS on Helicobacter pylori strains points to genetic variants associated with gastric cancer risk (2018)
  • Author(s): Berthenet Elvire、Yahara Koji、Thorell Kaisa、Pascoe Ben、Meric Guillaume、Mikhail Jane M.、Engstrand Lars、Enroth Helena、Burette Alain、Megraud Francis、Varon Christine、Atherton John C、Smith Sinead、Wilkinson Thomas S.、Hitchings Matthew D.、Falush Daniel、Sheppard Samuel K.
  • Journal Title: BMC Biology Volume: 16 Issue: 1 Pages: 84-84
  • DOI: 10.1186/s12915-018-0550-3
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Identification of stress responsive genes by studying specific relationships between mRNA and protein abundance (2018)
  • Author(s): Morimoto Shimpei、Yahara Koji
  • Journal Title: Heliyon Volume: 4 Issue: 3 Pages: e00558-e00558
  • DOI: 10.1016/j.heliyon.2018.e00558
  • Peer Reviewed / Open Access
• [Journal Article] Trends and patterns of national antimicrobial consumption in Japan from 2004 to 2016 (2018)
  • Author(s): Tsutsui Atsuko、Yahara Koji、Shibayama Keigo
  • Journal Title: Journal of Infection and Chemotherapy Volume: 24 Issue: 6 Pages: 414-421
  • DOI: 10.1016/j.jiac.2018.01.003
  • Peer Reviewed
• [Journal Article] MBGD update 2018: microbial genome database based on hierarchical orthology relations covering closely related and distantly related comparisons (2018)
  • Author(s): Uchiyama Ikuo、Mihara Motohiro、Nishide Hiroyo、Chiba Hirokazu、Kato Masaki
  • Journal Title: Nucleic Acids Research Volume: 47 Issue: D1 Pages: D382-D389
  • DOI: 10.1093/nar/gky1054
  • Peer Reviewed / Open Access
• [Journal Article] Award Report 第1回学術賞（基礎）. ピロリ菌進化機構のゲノム科学による解明：「化け続ける」という生き方 (2018)
  • Author(s): 小林一三
  • Journal Title: 日本ヘリコバクター学会誌 Volume: 20 Pages: 8-19
• [Journal Article] Macroevolution of gastric Helicobacter species unveils interspecies admixture and time of divergence (2018)
  • Author(s): Annemieke Smet, Koji Yahara, Mirko Rossi, Alfred Tay, Steffen Backert, Ensser Armin, James G. Fox, Bram Flahou, Richard Ducatelle, Freddy Haesebrouck, Jukka Corander
  • Journal Title: The ISME journal Volume: 印刷中
  • Peer Reviewed
• [Journal Article] Restriction glycosylases: involvement of endonuclease activities in the restriction process. (2017)
  • Author(s): Ming-Zhang Xie, Tomoyuki Matsuzaka, Hirokazu Yano, Yoshikazu Furuta, Toshiaki Nakano, Ken Ishikawa, Masaki Fukuyo, Noriko Takahashi, Yutaka Suzuki, Sumio Sugano, Hiroshi Ide and Ichizo Kobayashi
  • Journal Title: Nucleic Acids Res Volume: 45 Pages: 1392-1403
  • DOI: 10.1093/nar/gkw1250
  • Peer Reviewed / Open Access
• [Journal Article] PacBioシーケンサーによる細菌ゲノム・メチローム解読 (2017)
  • Author(s): 小林一三
  • Journal Title: 化学療法の領域 Volume: 33 Pages: 1408-1419
• [Journal Article] Helicobacter pylori sabA gene is associated with iron deficiency anemia in childhood and adolescence (2017)
  • Author(s): Kato Seiichi、Osaki Takako、Kamiya Shigeru、Zhang Xue-Song、Blaser Martin J.
  • Journal Title: PLOS ONE Volume: 12 Issue: 8 Pages: e0184046-e0184046
  • DOI: 10.1371/journal.pone.0184046
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Nation-wide survey of Helicobacter pylori treatment for children and adolescents in Japan. (2017)
  • Author(s): Okuda M, Kikuchi S, Mabe K, Osaki T, Kamiya S, Fukuda Y, Kato M
  • Journal Title: Pediatr. Int. Volume: 59 Issue: 1 Pages: 57-61
  • DOI: 10.1111/ped.13038
  • Peer Reviewed
• [Journal Article] Emerging patterns of plasmid-host coevolution that stabilize antibiotic resistance (2017)
  • Author(s): Stalder Thibault、Rogers Linda M.、Renfrow Chris、Yano Hirokazu、Smith Zachary、Top Eva M.
  • Journal Title: Scientific Reports Volume: 7 Issue: 1 Pages: 4853-4853
  • DOI: 10.1038/s41598-017-04662-0
  • Peer Reviewed / Open Access
• [Journal Article] Population Structure and Local Adaptation of MAC Lung Disease Agent Mycobacterium avium subsp. hominissuis (2017)
  • Author(s): Yano Hirokazu、Iwamoto Tomotada、Nishiuchi Yukiko、Nakajima Chie、Starkova Daria A.、Mokrousov Igor、Narvskaya Olga、Yoshida Shiomi、Arikawa Kentaro、Nakanishi Noriko、Osaki Ken、Nakagawa Ichiro、Ato Manabu、Suzuki Yasuhiko、Maruyama Fumito
  • Journal Title: Genome Biology and Evolution Volume: 9 Issue: 9 Pages: 2403-2417
  • DOI: 10.1093/gbe/evx183
  • NAID: 120006346271
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] DNA methylation epigenotype and clinical features of NRAS-mutation(+) colorectal cancer. (2017)
  • Author(s): Takane K. Akagi K. Fukuyo M. Yagi K. Takayama T. Kaneda A.
  • Journal Title: Cancer Med Volume: 印刷中 Issue: 5 Pages: 1023-1035
  • DOI: 10.1002/cam4.1061
  • Peer Reviewed / Open Access
• [Journal Article] Epstein-Barr virus infection induces genome-wide de novo DNA methylation in non-neoplastic gastric epithelial cells. (2017)
  • Author(s): Matsusaka K, Funata S, Fukuyo M, Seto Y, Aburatani H, Fukayama M, Kaneda A.
  • Journal Title: Journal of Pathology Volume: 242 Issue: 4 Pages: 391-399
  • DOI: 10.1002/path.4909
  • Peer Reviewed / Open Access
• [Journal Article] Artificial acceleration of mammalian cell reprogramming by bacterial proteins (2017)
  • Author(s): Ikeda Takashi、Uchiyama Ikuo、Iwasaki Mio、Sasaki Tetsuhiko、Nakagawa Masato、Okita Keisuke、Masui Shinji
  • Journal Title: Genes to Cells Volume: 22 Issue: 10 Pages: 918-928
  • DOI: 10.1111/gtc.12519
  • Peer Reviewed
• [Journal Article] Ortholog Identification and Comparative Analysis of Microbial Genomes Using MBGD and RECOG (2017)
  • Author(s): Uchiyama Ikuo
  • Journal Title: Methods Mol Biol. Volume: 1611 Pages: 147-168
  • DOI: 10.1007/978-1-4939-7015-5_12
  • ISBN: 9781493970131, 9781493970155
  • Peer Reviewed
• [Presentation] H. pylori genome and methylome evolution (2021)
  • Author(s): Ichizo Kobayashi
  • Organizer: IX International Symposium of Helicobacter pylori Infection and Gastric Cancer, Antigua, Guatemala
  • Int'l Joint Research / Invited
• [Presentation] 基調講演：ピロリ菌1000株ゲノム比較から現れる100の病原因子 (2021)
  • Author(s): 小林 一三
  • Organizer: 第26回日本ヘリコバクター学会学術集会
  • Invited
• [Presentation] Emerging virulence factor/oncoprotein candidates (2020)
  • Author(s): 小林 一三 Ichizo Kobayashi
  • Organizer: 第43回日本分子生物学会年会 ワークショップ細菌種内1000（エピ）ゲノムの比較で迫る、「細菌＋ヒト」共生体の存続、そして破綻としての発がん
• [Presentation] H. pylori base-excision restriction enzyme: an oncoprotein? (2019)
  • Author(s): I. Kobayashi1,2, K. Hanada3, M. Fukuyo4, K. Yahara5, H. Yonezawa1, Ceslovas Venclovas6, Y. Katsura7, H. Yano2, N. Takahashi2, A. Toyoda8, S. Nishiumi9, T. Azuma9, M. Kato10
  • Organizer: The 78th Annual Meeting of the Japanese Cancer Association, Kyoto
• [Presentation] H. pylori epigenome micro-evolution associated with DNA methyltransferases’ sequence-specificity changes (2019)
  • Author(s): M. Fukuyo1,2, H. Yano3,4, H. Yonezawa5, N. Takahashi5, K. Yahara6, M. Konno7, T. F. Shibata8, S. Shigenobu8, B. Rahmutulla1, I. Uchiyama8, Y. Hasegawa2, O. Ohara2, A. Kaneda1, I. Kobayashi3,5,9
  • Organizer: EHMSG2019
  • Int'l Joint Research
• [Presentation] Bacterial genome- and epigenome-wide association study (GWAS and EWAS) of gastric cancer and intestinal metaplasia (2019)
  • Author(s): Koji Yahara, Daniel Falush, Ichizo Kobayashi
  • Organizer: HpGP BAG meeting. National Cancer Institute
  • Int'l Joint Research / Invited
• [Presentation] Helicobacter pylori as an extreme model in genetics and evolution (2019)
  • Author(s): Ichizo Kobayashi
  • Organizer: HpGP Workshop, National Cancer Institute
  • Int'l Joint Research / Invited
• [Presentation] 遺伝・エピジェネティクス・進化のモデルとしてのピロリ菌 (2019)
  • Author(s): Ichizo Kobayashi
  • Organizer: 国立遺伝学研究所 研究集会「分子進化研究の多様な世界」
  • Invited
• [Presentation] Base-excising Restriction Enzymes (2019)
  • Author(s): Ichizo Kobayashi
  • Organizer: JSHR2019
• [Presentation] Epigenome-based adaptive evolution of H. pylori: Evidence from genome, methylome, transcriptome and phenotype analyses (2019)
  • Author(s): Ichizo Kobayashi
  • Organizer: 16th Japan-Korea Joint Symposium on Helicobacter Research
  • Int'l Joint Research / Invited
• [Presentation] DNAメチル化酵素の配列特異性変換によるピロリ菌エピゲノム・ミクロ進化 (2019)
  • Author(s): 福世真樹, 矢野大和, 矢原耕史, 今野武津子, 柴田朋子, 重信秀治, 内山郁夫, 小林一三
  • Organizer: 第13回日本ゲノム微生物学会年会
• [Presentation] Epigenome-based adaptive evolution of H. pylori: Evidence from genome, methylome, transcriptome and phenotype analyses (2019)
  • Author(s): Ichizo Kobayashi
  • Organizer: United States-Japan Cooperative Medical Sciences Program 21st International Conference on Emerging Infectious Diseases (EID) in the Pacific Rim
  • Int'l Joint Research / Invited
• [Presentation] Epigenome-based adaptive evolution of H. pylori: Evidence from genome, methylome, transcriptome and phenotype analyses (2019)
  • Author(s): Ichizo Kobayashi
  • Organizer: Biological Transactions: From Molecules to Organisms (BTMO-2019)
• [Presentation] Epigenome-based adaptive evolution of H. pylori: Evidence from genome, methylome, transcriptome and phenotype analyses (2019)
  • Author(s): Ichizo Kobayashi
  • Organizer: 16th Japan-Korea Joint Symposium on Helicobacter Research, Busan, Korea
  • Int'l Joint Research / Invited
• [Presentation] Epigenome-based adaptive evolution of H. pylori: Evidence from genome, methylome, transcriptome and phenotype analyses (2019)
  • Author(s): Ichizo Kobayashi
  • Organizer: United States-Japan Cooperative Medical Sciences Program 21st International Conference on Emerging Infectious Diseases (EID) in the Pacific Rim, Hanoi, Vietnam
  • Int'l Joint Research / Invited
• [Presentation] Epigenome-based adaptive evolution of H. pylori: Evidence from genome, methylome, transcriptome and phenotype analyses (2019)
  • Author(s): Ichizo Kobayashi
  • Organizer: Biological Transactions: From Molecules to Organisms (BTMO-2019), Bangalore, India
  • Int'l Joint Research / Invited
• [Presentation] Base-excising Restriction Enzymes (2018)
  • Author(s): Ichizo Kobayashi
  • Organizer: 13th International Workshop on Pathogenesis and Host Response in Helicobacter Infections, Helsingor, Denmark
  • Int'l Joint Research / Invited
• [Presentation] H. pylori Genome and Methylome Evolution (2018)
  • Author(s): Ichizo Kobayashi
  • Organizer: VIII International Symposium of Helicobacter pylori infection and Gastric Cancer、Belo Horizonte, Brazil
  • Int'l Joint Research / Invited
• [Presentation] ゲノム（＝ATGC…)は、本当に遺伝と進化の単位？ (2018)
  • Author(s): 小林一三
  • Organizer: 木村資生記念進化学セミナー
  • Invited
• [Presentation] ピロリ菌DNAメチル化酵素遺伝子の再編による配列特異性変換とエピゲノム・ミクロ進化 (2018)
  • Author(s): 福世真樹, 矢野大和, 矢原耕史, 桂有加子、今野武津子, 柴田朋子, 重信秀治, 内山郁夫, 小林一三
  • Organizer: GSJ2018 日本遺伝学会第 90 回大会
• [Presentation] 遺伝子発現制御ネットワークのハブが水平伝達する (2018)
  • Author(s): 小林一三
  • Organizer: 国立遺伝学研究所 研究会「自然界の生物種間における遺伝情報の多様性をもたらす“DNA 水平伝播”の解析と活用法」
• [Presentation] ピロリ菌多数株ゲノム・メチローム解析プロジェクトの現状と課題 Decoding genome and methylome of hundreds of H. pylori strains (2018)
  • Author(s): Hirokazu Yano, Mutsuko Konno, Ichizo Kobayashi.
  • Organizer: 第24回日本ヘリコバクター学会学術集会
• [Presentation] プログラム死と適応進化 (2018)
  • Author(s): 小林一三
  • Organizer: VNC研究会
  • Invited
• [Presentation] ピロリ菌多数株ゲノムメチローム解析プロジェクトの現状と展望 (2018)
  • Author(s): 小林一三、高橋規子、福世真樹、矢野大和、矢原耕史、内山郁夫
  • Organizer: 第12回日本ゲノム微生物学会年会
• [Presentation] H. pylori Genome and Methylome Evolution (2018)
  • Author(s): Ichizo Kobayashi
  • Organizer: VIII International Symposium of Helicobacter pylori infection and Gastric Cancer
  • Int'l Joint Research / Invited
• [Presentation] Adaptive evolution driven by self-recognizing epigenetic elements: Evidence from genomes, methylomes, transcriptomes and phenotype. (2017)
  • Author(s): Ichizo Kobayashi
  • Organizer: 基礎生物学研究所
  • Invited
• [Presentation] Restriction-modification: selfish epigenetic elements involved in adaptive evolution (2017)
  • Author(s): Ichizo Kobayashi
  • Organizer: Centennial Celebration of Bacteriophage Research
  • Int'l Joint Research
• [Presentation] Epigenome-based adaptive evolution hypothesis: evidence from genome, methylome, transcriptome and phenotype analyses (2017)
  • Author(s): Ichizo Kobayashi
  • Organizer: 12th International Workshop on Advanced Genomics
  • Int'l Joint Research
• [Presentation] 日本ヘリコバクター学会学術賞（基礎）受賞講演「ピロリ菌進化機構のゲノム科学による解明」 (2017)
  • Author(s): 小林一三
  • Organizer: 第23回日本ヘリコバクター学会学術集会
  • Invited
• [Presentation] ゲノム（＝ATGC…)は、本当に遺伝と進化の単位？ (2017)
  • Author(s): 小林一三
  • Organizer: 木村資生記念進化学セミナー
  • Invited
• [Presentation] Epigenome-based adaptive evolution in bacteria: Evidence from genome, methylome, transcriptome and phenotype analyses (2017)
  • Author(s): Ichizo Kobayashi
  • Organizer: Latsis Symposium 2017, Transgenerational Epigenetic Inheritance: Impact for Biology and Society
  • Int'l Joint Research
• [Presentation] Epigenome-based adaptive evolution hypothesis: evidence from genome, methylome, transcriptome and phenotype analyses in H. pylori (2017)
  • Author(s): Ichizo Kobayashi
  • Organizer: EHMSG2017: European Helicobacter and Microbiota Study Group; EHMSG XXXth International Workshop on Helicobacter & Microbiota in Inflammation & Cancer
  • Int'l Joint Research
• [Presentation] Identification of 60 Genomic Islands in H. pylori (2017)
  • Author(s): Ikuo Uchiyama, Jacob Albritton, Masaki Fukuyo, Kenji K. Kojima, Koji Yahara, Ichizo Kobayashi
  • Organizer: EHMSG2017: European Helicobacter and Microbiota Study Group; EHMSG XXXth International Workshop on Helicobacter & Microbiota in Inflammation & Cancer
  • Int'l Joint Research
• [Presentation] Epigenome-based adaptive evolution: evidence from genomes, methylomes, transcriptomes and phenotype in H. pylori (2017)
  • Author(s): Ichizo Kobayashi
  • Organizer: CHRO2019: 19th International workshop CHRO 2017 on Campylobacter, Helicobacter and Related Organisms
  • Int'l Joint Research
• [Presentation] Base-excising restriction enzymes --- towards epigenetic immune systems (2017)
  • Author(s): Zhang Y, Matsuzaka T, Yano H, Furuta Y, Nakano T, Ishikawa K, Fukuyo M, Takahashi N, Suzuki Y, Sugano S, Ide H, Kobayashi I.
  • Organizer: CHRO2019: 19th International workshop CHRO 2017 on Campylobacter, Helicobacter and Related Organisms
  • Int'l Joint Research
• [Presentation] Epigenetic immunity as one form of life (2017)
  • Author(s): Ichizo Kobayashi
  • Organizer: ProkaGENOMICS 2017: 7th European Conference on Prokaryotic and Fungal Genomics
  • Int'l Joint Research
• [Presentation] Epigenetic views of life and evolution: evidence from genomics, methylomics and transcriptomics in bacteria (2017)
  • Author(s): Ichizo Kobayashi
  • Organizer: Universidade de Lisboa
  • Invited
• [Presentation] Epigenetic views of life and evolution: evidence from genomics, methylomics and transcriptomics in bacteria (2017)
  • Author(s): Ichizo Kobayashi
  • Organizer: Universita di Bologna
  • Invited
• [Presentation] Epigenetic views of life and evolution: evidence from genomics, methylomics and transcriptomics in bacteria (2017)
  • Author(s): Ichizo Kobayashi
  • Organizer: 国立遺伝学研究所
  • Invited
• [Book] Detection of DNA double-strand breaks by pulsed-field gel electrophoresis of circular bacterial chromosomes (2019)
  • Author(s): Ichizo Kobayashi and Hanada Katsuhiro
  • Publisher: Springer
• [Remarks] Helicobacter pylori Genome Project (HpGP)
  • URL: https://dceg.cancer.gov/research/how-we-study/genomic-studies/h-pylori-genome-project
• [Remarks] 中国疾病予防控制中心
  • URL: http://www.chinacdc.cn/
• [Remarks] NCI, Division of Cancer Epidemiology and Genetics
  • URL: https://dceg.cancer.gov/
• [Remarks] Milner Center for Evolution
  • URL: https://www.bath.ac.uk/research-centres/milner-centre-for-evolution/
• [Remarks] Kobayashi lab
  • URL: http://www.ims.u-tokyo.ac.jp/ikobaya/publication_en.html
• [Remarks] 杏林大学医学部感染症学教室（微生物学）
  • URL: http://www.kyorin-u.ac.jp/univ/user/medicine/did/staff.html
• [Remarks] Koji Yahara's research page
  • URL: https://sites.google.com/site/kojiyahara/
• [Remarks] 東北大学大学院生命科学研究科 分子化学生物学専攻 :微生物進化機能開発寄附講座 講師 矢野大和
  • URL: https://www.lifesci.tohoku.ac.jp/research/teacher/detail---id-45511.html
• [Remarks] 特任助教・かずさDNA研究所特任研究員 福世 真樹 Masaki FUKUYO
  • URL: http://www.m.chiba-u.ac.jp/class/moloncol/personal_fukuyo.html