Dynamics of microbial community genomes at time-series stations in the subarctic and subtropical gyres of the western North Pacific

• Project/Area Number: 24241002
• Research Category: Grant-in-Aid for Scientific Research (A)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Environmental dynamic analysis
• Research Institution: The University of Tokyo
• Principal Investigator: HAMASAKI KOJI 東京大学, 大気海洋研究所, 准教授 (80277871)
• Co-Investigator(Kenkyū-buntansha): TAKAMI Hideto 国立研究開発法人海洋研究開発機構, 海底資源研究開発センター, 上席研究員 (70359165)
• Project Period (FY): 2012-04-01 – 2016-03-31
• Project Status: Completed (Fiscal Year 2015)
• Budget Amount: ¥46,800,000 (Direct Cost: ¥36,000,000、Indirect Cost: ¥10,800,000); Fiscal Year 2015: ¥7,150,000 (Direct Cost: ¥5,500,000、Indirect Cost: ¥1,650,000); Fiscal Year 2014: ¥13,130,000 (Direct Cost: ¥10,100,000、Indirect Cost: ¥3,030,000); Fiscal Year 2013: ¥11,310,000 (Direct Cost: ¥8,700,000、Indirect Cost: ¥2,610,000); Fiscal Year 2012: ¥15,210,000 (Direct Cost: ¥11,700,000、Indirect Cost: ¥3,510,000)
• Keywords: 微生物 / メタゲノム / 西部北太平洋 / 海洋細菌 / 時系列観測 / 多様性 / メタゲノミクス / 細菌 / 古細菌

Outline of Final Research Achievements

The western North Pacific is one of the most productive area in the ocean and thus important for carbon sequestration by strong activity of the Biological Carbon Pump. Here, we report temporal variability of structures and metabolic potentials of surface seawater microbial communities collected from two contrasting time-series stations, K2 and S1, in the subarctic and subtropical gyres, respectively. This is the first report of metagenomic comparison of temporal dynamics in open ocean microbial communities of subtropical and subarctic areas, which has provided invaluable data and fruitful outcomes. We have also contributed to develop a next generation bioinformatics tool of metagenomics, so-called Metabolic And Physiological potentiaL Evaluator (MAPLE), and presented usefulness of this system as a novel tool in analyzing ecosystem dynamics.

Research Products

• [Journal Article] Active populations of rare microbes in oceanic environments as revealed by bromodeoxyuridine incorporation and 454 tag sequencing (2016)
  • Author(s): Koji Hamasaki, Akito Taniguchi, Yuya Tada, Ryo Kaneko, and Takeshi Miki
  • Journal Title: Gene Volume: 576 Issue: 2 Pages: 650-656
  • DOI: 10.1016/j.gene.2015.10.016
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] Depth-dependent and seasonal variability in archaeal community structure in the subarctic and subtropical western North Pacific (2016)
  • Author(s): Ryo Kaneko, Toshi Nagata, Shotaro Suzuki, Koji Hamasaki
  • Journal Title: Journal of Oceanography Volume: in press
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Nitrification and its influence on biogeochemical cycles from the equatorial Pacific to the Arctic Ocean (2016)
  • Author(s): Takuhei Shiozaki, Minoru Ijichi, Kazuo Isobe, Fuminori Hashihama, Ken-ichi Nakamura, Makoto Ehama, Ken-ichi Hayashizaki, Kazutaka Takahashi, Koji Hamasaki, Ken Furuya
  • Journal Title: The ISME Journal Volume: - Issue: 9 Pages: 1-14
  • DOI: 10.1038/ismej.2016.18
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] 細菌プランクトンの動態と光栄養 (2016)
  • Author(s): 浜崎恒二
  • Journal Title: 月刊海洋特集：光とプランクトン研究―現状と展望― Volume: 543 Pages: 6-14
• [Journal Article] Fabibacter misakiensis sp. nov., a novel marine bacterium isolated from the coastal surface water in Japan (2015)
  • Author(s): Shu-Kuan Wong; Sanghwa Park; Jung-Sook Lee; Keun Chul Lee; Hiroshi Xavier Chiura; Kazuhiro Kogure; Koji Hamasaki
  • Journal Title: International Journal of Systematic and Evolutionary Microbiology Volume: 65 Issue: Pt_10 Pages: 3276-3280
  • DOI: 10.1099/ijsem.0.000405
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Spatial distribution and cell size of aerobic anoxygenic phototrophic bacteria in the Uwa Sea, Japan (2015)
  • Author(s): Sato-Takabe, Y., S. Suzuki, R. Shishikura, K. Hamasaki, Y. Tada, T. Kataoka, T. Yokokawa, N. Yoshie, S. Suzuki
  • Journal Title: J. Oceanogr. Volume: 71 Issue: 1 Pages: 151-159
  • DOI: 10.1007/s10872-014-0267-z
  • Peer Reviewed / Open Access
• [Journal Article] Typhoon-induced response of phytoplankton and bacteria in temperate coastal waters. (2015)
  • Author(s): Tsuchiya, K., Sano, T., Kawasaki, N., Fukuda, H., Tomioka, N., Hamasaki, K., Tada, Y., Shimode, S., Toda, T. and Imai, A
  • Journal Title: Estuarine, Coastal and Shelf Science Volume: 167 Pages: 458-465
  • DOI: 10.1016/j.ecss.2015.10.026
  • Peer Reviewed
• [Journal Article] New radioisotope-free method for measuring bacterial production using [15N5]-2′-deoxyadenosine and liquid chromatography mass spectrometry (LC–MS) in aquatic environments (2015)
  • Author(s): Tsuchiya, K., Sano, T., Kawasaki, N., Fukuda, H., Tomioka, N., Hamasaki, K., Tada, Y., Shimode, S., Toda, T. and Imai, A.
  • Journal Title: Journal of Oceanography Volume: 71 Issue: 6 Pages: 675-683
  • DOI: 10.1007/s10872-015-0310-8
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Ecological study of bacterial populations related to biogenic gas transformation in marine environments (2014)
  • Author(s): Hamasaki, K., Kaneko, R., Mouri, A., Tada, Y., Kasamatsu-Takasawa, N., Nagao, I.
  • Journal Title: Western Pacific Air-Sea Interaction Study (Eds. M. Uematsu, Y. Yokouchi, Y. W. Watanabe, S. Takeda, and Y. Yamanaka) Volume: 0 Pages: 203-209
  • DOI: 10.5047/w-pass.a03.004
  • Open Access
• [Journal Article] Evaluation method for the potential functionome harbored in the genome and metagenome. (2012)
  • Author(s): Takami H, Taniguchi T, Moriya Y, Kuwahara T, Kanehisa M, Goto S.
  • Journal Title: BMC Genomics Volume: 13 Issue: 1 Pages: 699-699
  • DOI: 10.1186/1471-2164-13-699
  • Peer Reviewed
• [Presentation] 太平洋における細菌プランクトンの多様性と機能 (2016)
  • Author(s): 浜崎恒二
  • Organizer: 第５回JAMBIOフォーラム
  • Place of Presentation: 筑波大学東京キャンパス文京校舎，東京
  • Year and Date: 2016-02-10
  • Invited
• [Presentation] Diversity, community structure and functional potential of planktonic bacteria in the Pacific Ocean: insights from the NEOPS transoceanic cruises (2015)
  • Author(s): Koji Hamasaki, Shotaro Suzuki, Yoshitoshi Ogura, Tetsuya Hayashi, Hiroshi Mori, Ken Kurokawa, Wataru Arai, Hideto Takami
  • Organizer: International symposium: “Developing new ocean provinces on their biogeochemistry and ecosystems”
  • Place of Presentation: 東京大学本郷キャンパス，東京
  • Year and Date: 2015-12-03
  • Invited
• [Presentation] Current systems shape bacterial community structure in the Sanriku coastal area, northwestern Japan (2015)
  • Author(s): Ryo Kaneko, Yoko Kobayashi, Koji Hamasaki, Takuhei Shiozaki, and Kazuhiro Kogure
  • Organizer: 7th Japan-Taiwan-Korea International Symposium on Microbial Ecology
  • Place of Presentation: 土浦亀城プラザ，茨城
  • Year and Date: 2015-10-17
  • Int'l Joint Research
• [Presentation] Isolation and characterization of rhodopsin containing Mesoflavibacter misakiensis SK-14 sp, nov. from sea surface microlayer at the coast of Misaki, Japan (2015)
  • Author(s): Sanghwa Park, Shu-Kuan Wong, Jung-Sook Lee, Keun Chul Lee, Suk Won Kim, Koji Hamasaki and Kazuhiro Kogure
  • Organizer: 7th Japan-Taiwan-Korea International Symposium on Microbial Ecology
  • Place of Presentation: 土浦亀城プラザ，茨城
  • Year and Date: 2015-10-17
  • Int'l Joint Research
• [Presentation] 環境DNAから探る新たな海洋像 (2015)
  • Author(s): 浜崎恒二
  • Organizer: マリノフォーラム21サロン
  • Place of Presentation: マリノフォーラム21，東京
  • Year and Date: 2015-09-15
  • Invited
• [Presentation] Characterizing the biological and microbial community dynamics in the coastal sea surface microlayer (2015)
  • Author(s): Shu-Kuan Wong, Shotaro Suzuki, Yingshun Cui, Ryo Kaneko, Kazuhiro Kogure, Koji Hamasaki
  • Organizer: 日本地球惑星科学連合2015年大会
  • Place of Presentation: 幕張メッセ，千葉
  • Year and Date: 2015-05-24
• [Presentation] Comparative study for ecosystem and biogeochemistry at comparative time-series stations in the northwestern Pacific subarctic gyre and subtropical region: K2S1 project (2015)
  • Author(s): Makio Honda and the K2S1 project Team
  • Organizer: EGU General Assembly
  • Place of Presentation: Vienna, Austria
  • Year and Date: 2015-04-12 – 2015-04-17
• [Presentation] Comparative study for ecosystem and biogeochemistry at comparative time-series stations in the northwestern Pacific subarctic gyre and subtropical region: K2S1 project (2015)
  • Author(s): Makio Honda and the K2S1 project Team
  • Organizer: EGU General Assembly 2015
  • Place of Presentation: Viena, Austria
  • Year and Date: 2015-04-12
  • Int'l Joint Research
• [Presentation] 安定同位体・LC-MS を用いた細菌生産測定法 (2015)
  • Author(s): 土屋健司, 戸田龍樹, 川崎伸之, 佐野友春, 冨岡典子, 今井章雄, 福田秀樹, 浜崎恒二, 多田雄哉, 下出信次
  • Organizer: 日本海洋学会春季大会
  • Place of Presentation: 東京海洋大学，品川
  • Year and Date: 2015-03-22 – 2015-03-24
• [Presentation] 気候変動に伴う生態系・物質循環の変動とフィードバック:K2S1 プロジェクトまとめ (2015)
  • Author(s): 本多牧生・松本和彦・藤木徹一・Eko Siswanto・笹岡晃征・川上創・脇田昌英・喜多村稔・笹井義 一・Sherwood L. Smith・橋岡豪人・吉川知里・木元克典・渡邉修一・三野義尚・ 鋤柄千穂・阿部理、小針統、永田俊・浜崎恒二・福田秀樹・金子亮、内宮万里央、才野敏郎
  • Organizer: ブルーアース2015
  • Place of Presentation: 東京海洋大学，品川
  • Year and Date: 2015-03-19 – 2015-03-20
• [Presentation] 放射性同位体を全く使用しないバクテリア生産量測定法の開発 (2015)
  • Author(s): 土屋健司, 戸田龍樹,川崎伸之,佐野友春, 冨岡典子, 今井章雄，福田秀樹, 浜崎恒二,多田雄哉,下出信次
  • Organizer: 第49回日本水環境学会年会
  • Place of Presentation: 金沢大学, 金沢
  • Year and Date: 2015-03-16 – 2015-03-18
• [Presentation] Spatiotemporal dynamics of planktonic archaea in the western North Pacific Ocean (2015)
  • Author(s): Ryo Kaneko, Shotaro Suzuki, Toshi Nagata, Makio Honda, Koji Hamasaki
  • Organizer: ASLO meeting
  • Place of Presentation: Granada, Spain
  • Year and Date: 2015-02-22 – 2015-02-27
• [Presentation] 時系列メタゲノミクスでみる西部北太平洋の微生物群集代謝機能 (2014)
  • Author(s): 浜崎恒二，金子亮，荒井渉，豊田敦，藤山秋佐夫，本多牧生，高見英人
  • Organizer: 環境微生物学会合同大会
  • Place of Presentation: 浜松アクトシティコングレスセンター，浜松
  • Year and Date: 2014-10-21 – 2014-10-24
• [Presentation] Variability of bacterioplankton metabolic potentials in the western North Pacific time-series stations, K2 and S1 (2014)
  • Author(s): Koji Hamasaki, Ryo Kaneko, Wataru Arai, Atsushi Toyoda, Asao Fujiyama, Makio Honda, Hideto Takami
  • Organizer: 15th ISME meeting
  • Place of Presentation: Soul, Korea
  • Year and Date: 2014-08-24 – 2014-08-29
• [Presentation] Changes in Archaeal Community Structure in the Sea Surface Microlayer (2014)
  • Author(s): Shu-Kuan Wong, Ryo Kaneko, Shotaro Suzuki, Yingshun Cui, Kazuhiro Kogure, Koji Hamasaki
  • Organizer: 15th ISME meeting
  • Place of Presentation: Soul, Korea
  • Year and Date: 2014-08-24 – 2014-08-29
• [Presentation] パイロシーケンシングによる西部北太平洋時系列観測点K2, S1における細菌群集動態の解析 (2014)
  • Author(s): 金子亮・内宮万里央・福田秀樹・鈴木翔太郎・小川浩史・永田俊・本多牧生・浜崎恒二
  • Organizer: ブルーアース2014
  • Place of Presentation: 東京海洋大学，東京
• [Presentation] Variability of bacterioplankton metabolic potentials in the western North Pacific time-series stations, K2 and S1 (2014)
  • Author(s): Koji Hamasaki, Ryo Kaneko, Wataru Arai, Atsushi Toyoda, Asao Fujiyama, Makio Honda, Hideto Takami
  • Organizer: 15th International Symposium on Microbial Ecology
  • Place of Presentation: Soul, South Korea
• [Presentation] Comparison of particle-associated and free-living archaeal communities in the western North Pacific Ocean (2013)
  • Author(s): Ryo Kaneko, Uchimiya Mario, Fukuda Hideki, Suzuki Shoutaro, Ogawa Hiroshi, Nagata Toshi, Honda Makio, Hamasaki Koji
  • Organizer: The 13th Symposium on Aquatic Microbial Ecology
  • Place of Presentation: Stresa, Italy
• [Presentation] Metagenomic evaluation of metabolic potential in microbial communities: stability and variability in the western North Pacific (2013)
  • Author(s): Koji Hamasaki, Ryo Kaneko, Hideto Takami
  • Organizer: International Symposium on Aquatic Metagenomics
  • Place of Presentation: Kitasato University，Tokyo
  • Invited
• [Presentation] Spatiotemporal dynamics of bacterioplankton in the Pacific Ocean: clues to ecosystem functioning (2013)
  • Author(s): Koji Hamasaki, Ryo Kaneko, Shotaro Suzuki, Yingshun Cui
  • Organizer: The 5th Taiwan-Korea-Japan International Symposium on Microbial Ecology
  • Place of Presentation: Taipei, Taiwan
  • Invited
• [Presentation] 西部北太平洋中深層における懸濁粒子付着微生物の群集構造解析 (2013)
  • Author(s): 金子亮・内宮万里央・福田秀樹・鈴木翔太郎・小川浩史・永田俊・浜崎恒二
  • Organizer: 日本海洋学会春季大会シンポジウム
  • Place of Presentation: 東京海洋大学
• [Presentation] 西部北太平洋における微生物群集の時空間変動 (2013)
  • Author(s): 金子亮・内宮万里央・福田秀樹・鈴木翔太郎・小川浩史・永田俊・浜崎恒二
  • Organizer: ブルーアース
  • Place of Presentation: 東京海洋大学
• [Presentation] Temporal dynamics of the microbial comunity structure in dark ocean of the western north pacific (2012)
  • Author(s): Kaneko, R., Uchimiya, M., Fukuda, H., Suzuki, S., Ogawa, H., Nagata, T., Honda, M., Hamasaki, K.
  • Organizer: 14th ISME meeting
  • Place of Presentation: Copenhagen
• [Presentation] 太平洋における微生物プランクトンの多様性・群集構造・機能
  • Author(s): 浜崎恒二
  • Organizer: 京都大学生態学研究センターセミナー
  • Place of Presentation: 京都大学，京都
  • Invited
• [Book] 水圏微生物学の基礎 (2015)
  • Author(s): 濵﨑 恒二 , 木暮 一啓 , 澤 辺智雄 , 澤辺 桃子, 鈴木 聡, 砂村 倫成, 永田 俊, 春田 伸, 福田 秀樹, 美野 さやか, 和田 実
  • Total Pages: 261
  • Publisher: 恒星社厚生閣
• [Book] 環境と微生物の事典 (2014)
  • Author(s): 日本微生物生態学会（編）
  • Total Pages: 432
  • Publisher: 朝倉書店
• [Remarks] メタゲノム代謝・複合系モジュール自動解析システム (MAPLE) 公開版
  • URL: http://www.genome.jp/tools/maple/help.html