Appropriate deoxyribonucleosides for measuring bacterial production from the viewpoint of DNA synthesis rate

• Project/Area Number: 15K21449
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Multi-year Fund
• Research Field: Aquatic bioproduction science; Environmental dynamic analysis
• Research Institution: Soka University
• Principal Investigator: Tsuchiya Kenji 創価大学, 理工学部, 助教 (70739276)
• Research Collaborator: SANO Tomoharu 国立環境研究所, 環境計測研究センター, 主任研究員 (10178808) ; TOMIOKA Noriko 国立環境研究所, 地域環境研究センター, 主任研究員 (40168399) ; SHIMODE Shinji 横浜国立大学, 環境情報研究院, 准教授 (70397090)
• Project Period (FY): 2015-04-01 – 2017-03-31
• Project Status: Completed (Fiscal Year 2016)
• Budget Amount: ¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000); Fiscal Year 2016: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000); Fiscal Year 2015: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
• Keywords: バクテリア生産 / 安定同位体 / LC-MS / DNA合成 / デオキシリボヌクレオシド / DNA / デオキシアデノシン / デオキシグアノシン / チミジン / LC/MS/MS

Outline of Final Research Achievements

Incorporation characteristics of four deoxyribonucleosides (thymidine, deoxyadenosine, deoxyguanosine and deoxycytidine) composing DNA in natural bacterial communities were examined to evaluate appropriate deoxyribonucleosides for measuring bacterial production from the viewpoint of DNA synthesis rate. The highest incorporation rate among the four deoxyribonucleosides was deoxyguanosine. The present study suggests that measurement of bacterial production by using deoxyguanosine possibly reflects larger numbers of bacterial species productions.

Research Products

• [Journal Article] Bacterial Growth Rate and Grazing Pressure on Bacteria in the Euphotic and Disphotic Layers in Temperate Coastal Waters of Sagami Bay, Japan (2016)
  • Author(s): Youta Sugai, Kenji Tsuchiya, Victor S. Kuwahara, Shinji Shimode, Kazuhiro Komatsu, Akio Imai, Tatsuki Toda
  • Journal Title: Journal of Oceanography Volume: 印刷中 Issue: 4 Pages: 577-587
  • DOI: 10.1007/s10872-016-0352-6
  • 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] 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
• [Presentation] 廃水を用いた褐藻類ノコギリモク（Sargassum macrocarpum）の生長と栄養塩吸収特性 (2017)
  • Author(s): 大竹正弘・Gregory N. Nishihara・井上幸男・明戸剛・伊賀剛・土屋健司・戸田龍樹
  • Organizer: 日本藻類学会第41回大会
  • Place of Presentation: 高知大学
  • Year and Date: 2017-03-23
• [Presentation] 低リン濃度海域における持続的なリン施肥が褐藻類ノコギリモクの幼体に与える生長促進効果 (2017)
  • Author(s): 井上幸男・明戸剛・伊賀剛・和田実・土屋健司・戸田龍樹・Gregory N. Nishihara
  • Organizer: 日本藻類学会第41回大会
  • Place of Presentation: 高知大学
  • Year and Date: 2017-03-23
• [Presentation] 緑藻類Ulva pertusaの栄養塩吸収速度と流速の関係 (2017)
  • Author(s): 大崎幸一・土屋健司・大竹正弘・Gregory N. Nishihara・井上幸男・戸田龍樹
  • Organizer: 日本藻類学会第41回大会
  • Place of Presentation: 高知大学
  • Year and Date: 2017-03-23
• [Presentation] 琵琶湖北湖におけるバクテリア生産量 (2017)
  • Author(s): 土屋健司・戸田龍樹・佐野友春・冨岡典子・小松一弘・高津文人・今井章雄・早川和秀・Indranil Mukherjee・中野伸一
  • Organizer: 第1回海洋生物学シンポジウム
  • Place of Presentation: 東京海洋大学
  • Year and Date: 2017-03-21
• [Presentation] 相模湾沿岸域の海面ミクロ層における微生物群集構造の季節変動 (2017)
  • Author(s): 菅井洋太・土屋健司・下出信次・渡邉啓子・黒沢則夫・戸田龍樹
  • Organizer: 第1回海洋生物学シンポジウム
  • Place of Presentation: 東京海洋大学
  • Year and Date: 2017-03-21
• [Presentation] カイアシ類 Acartia steueri の二次生産推定に及ぼす死亡個体の影響 (2017)
  • Author(s): 熊谷祐貴・名取則明・土屋健司・下出信次・戸田龍樹
  • Organizer: 第1回海洋生物学シンポジウム
  • Place of Presentation: 東京海洋大学
  • Year and Date: 2017-03-21
• [Presentation] 相模湾沿岸域の海面ミクロ層における微生物現存量・群集構造の季節変動 (2017)
  • Author(s): 菅井洋太・土屋健司・下出信次・渡邉啓子・黒沢則夫・戸田龍樹
  • Organizer: 第51回日本水環境学会年会
  • Place of Presentation: 熊本大学
  • Year and Date: 2017-03-15
• [Presentation] ニュートラルレッド(NR)染色および画像解析によるカイアシ類Acartia steueriの生死判別法の開発 (2017)
  • Author(s): 熊谷祐貴・名取則明・土屋健司・下出信次・戸田龍樹
  • Organizer: 第51回日本水環境学会年会
  • Place of Presentation: 熊本大学
  • Year and Date: 2017-03-15
• [Presentation] 褐藻類2種の廃水由来栄養塩の吸収特性の評価 (2017)
  • Author(s): 大竹正弘・Gregory N. Nishihara・井上幸男・明戸剛・伊賀剛・土屋健司・戸田龍樹
  • Organizer: 第51回日本水環境学会年会
  • Place of Presentation: 熊本大学
  • Year and Date: 2017-03-15
• [Presentation] 霞ケ浦湖心におけるバクテリア生産速度の季節変動 (2017)
  • Author(s): 土屋健司・戸田龍樹・佐野友春・冨岡典子・高村典子・中川恵・高津文人・小松一弘・今井章雄
  • Organizer: 第51回日本水環境学会年会
  • Place of Presentation: 熊本大学
  • Year and Date: 2017-03-15
• [Presentation] 海藻から滲出する溶存態有機物の光照射とバクテリア増殖の関係 (2017)
  • Author(s): 沖田一弥・土屋健司・名取則明・大竹正弘・下出信次・戸田龍樹
  • Organizer: 第51回日本水環境学会年会
  • Place of Presentation: 熊本大学
  • Year and Date: 2017-03-15
• [Presentation] レースウェイ型微細藻類培養槽(HRAP)の大型動物プランクトン除去による汚水処理性能および微細藻類への影響 (2016)
  • Author(s): 尾内秀美・関根睦実・菅井洋太・土屋健司・戸田龍樹
  • Organizer: 第27回廃棄物資源循環学会研究発表会
  • Place of Presentation: 和歌山大学
  • Year and Date: 2016-09-27
• [Presentation] 放射性同位体を使用しないバクテリア生産速度測定法の開発 (2016)
  • Author(s): 土屋健司
  • Organizer: 「第三回プランクトン学会若手の会」2016年日本ベントス学会・日本プランクトン学会合同大会
  • Place of Presentation: 熊本県立大学
  • Year and Date: 2016-09-07
  • Invited
• [Presentation] DNA合成速度に基づいたバクテリア生産測定に適した基質は何か (2016)
  • Author(s): 土屋健司・戸田龍樹・佐野友春・冨岡典子・今井章雄・下出信次
  • Organizer: 2016年日本ベントス学会・日本プランクトン学会合同大会
  • Place of Presentation: 熊本県立大学
  • Year and Date: 2016-09-07
• [Presentation] Growth evaluation of the red algae Gelidium elegans by nutrient enrichment from a calcium silicate-based phosphorus adsorbent (2016)
  • Author(s): Kurita, R., T. Iga, T. Aketo, K. Tsuchiya, V. S. Kuwahara and T. Toda
  • Organizer: 3rd International Postgraduate Conference on Biotechnology (IPCB 2016)
  • Place of Presentation: Surabaya, Indonesia
  • Year and Date: 2016-08-24
  • Int'l Joint Research
• [Presentation] Measuring bacterial production without radioisotopes in aquatic environments (2016)
  • Author(s): Tsuchiya, K.., T. Toda, T. Sano, N. Tomioka, A. Imai, N. Kawasaki, H. Fukuda, K. Hamasaki, Y. Tada and S. Shimode
  • Organizer: 3rd International Postgraduate Conference on Biotechnology (IPCB 2016)
  • Place of Presentation: Surabaya, Indonesia
  • Year and Date: 2016-08-24
  • Int'l Joint Research
• [Presentation] Identification of live and dead calanoid copepods by neutral red vital staining method with image analysis (2016)
  • Author(s): Kumagai, Y., N. Natori, K. Tsuchiya, S. Shimode and T. Toda
  • Organizer: 3rd International Postgraduate Conference on Biotechnology (IPCB 2016)
  • Place of Presentation: Surabaya, Indonesia
  • Year and Date: 2016-08-24
  • Int'l Joint Research
• [Presentation] Seasonal variation of microbial communities in the sea surface microlayer in temperate coastal waters of Sagami Bay, Japan (2016)
  • Author(s): Sugai, Y., K. Tsuchiya, S. Shimode and T. Toda
  • Organizer: 3rd International Postgraduate Conference on Biotechnology (IPCB 2016)
  • Place of Presentation: Surabaya, Indonesia
  • Year and Date: 2016-08-24
  • Int'l Joint Research
• [Presentation] Growth characteristics of brown algae Ishige okamurae using wastewater (2016)
  • Author(s): Ohtake, M, K. Tsuchiya, T. Iga, T. Aketo and T. Toda
  • Organizer: 3rd International Postgraduate Conference on Biotechnology (IPCB 2016)
  • Place of Presentation: Surabaya, Indonesia
  • Year and Date: 2016-08-24
  • Int'l Joint Research
• [Presentation] Comparison between [15N]-deoxyadenosine method and [3H]-thymidine method for measuring bacterial production in aquatic environments (2016)
  • Author(s): Tsuchiya, K., T. Toda, T. Sano, N. Tomioka, A. Imai, N. Kawasaki, H. Fukuda, K. Hamasaki, Y. Tada and S. Shimode
  • Organizer: 33rd SIL Congress
  • Place of Presentation: Turin, Italy
  • Year and Date: 2016-07-31
  • Int'l Joint Research
• [Presentation] バクテリア生産測定における各デオキシヌクレオシドのDNAへの取り込み特性 (2016)
  • Author(s): 土屋健司・戸田龍樹・佐野友春・冨岡典子・今井章雄・下出信次
  • Organizer: 2016年度日本海洋学会春季大会
  • Place of Presentation: 東京大学
  • Year and Date: 2016-03-14
• [Presentation] バクテリア生産測定における15N-デオキシアデノシン法と従来法の比較 (2015)
  • Author(s): 土屋健司・川崎伸之・佐野友春・冨岡典子・福田秀樹・浜崎恒二・多田雄哉・下出信次・戸田龍樹・今井章雄
  • Organizer: 2015年度日本海洋学会秋季大会
  • Place of Presentation: 愛媛大学
  • Year and Date: 2015-09-26
• [Presentation] 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): Kenji Tsuchiya, Tatsuki Toda, Nobuyuki Kawasaki, Tomoharu Sano, Noriko Tomioka, Akio Imai, Hideki Fukuda, Koji Hamasaki, Yuya Tatda, Shinji Shimode
  • Organizer: ECSA55 Unbounded boundaries and shifting baselines
  • Place of Presentation: イギリス、ロンドン
  • Year and Date: 2015-09-06
  • Int'l Joint Research