Microbial analysis from an ice core

• Project/Area Number: 26281017
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Partial Multi-year Fund
• Section: 一般
• Research Field: Environmental dynamic analysis
• Research Institution: University of Yamanashi (2016); 大学共同利用機関法人情報・システム研究機構(新領域融合研究センター及びライフサイエンス統合データベースセンター) (2014-2015)
• Principal Investigator: SEGAWA Takahiro 山梨大学, 総合研究部, 助教 (90425835)
• Co-Investigator(Kenkyū-buntansha): 石井 聡 北海道大学, 工学(系)研究科(研究院), 助教 (10612674) ; 近藤 伸二 大学共同利用機関法人情報・システム研究機構(新領域融合研究センター及びライフサイ, 大学共同利用機関等の部局等, 特任准教授 (30415161)
• Co-Investigator(Renkei-kenkyūsha): USHIDA Kazunari 京都府立大学, 生命環境科学研究科, 教授 (50183017) ; AZUMA Kumiko 国立極地研究所, 気水圏研究グループ, 教授 (80202620) ; KAWAMURA Kenji 国立極地研究所, 気水圏研究グループ, 准教授 (90431478)
• Project Period (FY): 2014-04-01 – 2017-03-31
• Project Status: Completed (Fiscal Year 2016)
• Budget Amount: ¥16,510,000 (Direct Cost: ¥12,700,000、Indirect Cost: ¥3,810,000); Fiscal Year 2016: ¥2,860,000 (Direct Cost: ¥2,200,000、Indirect Cost: ¥660,000); Fiscal Year 2015: ¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000); Fiscal Year 2014: ¥9,750,000 (Direct Cost: ¥7,500,000、Indirect Cost: ¥2,250,000)
• Keywords: 古代DNA / アイスコア / 微生物 / 環境変動 / 古環境 / メタゲノム

Outline of Final Research Achievements

Ice cores drilled from glaciers can provide a means of direct analysis of microbes that grew in the past. The species composition of microorganisms in the ice cores could reflect the environmental condition at that time. Despite the ecological importance in glacial environments, the phylogeographic distributions and genetic structures of microorganisms in ice cores are still highly limited. We reconstruct the microorganisms by molecular DNA analysis collected from the ice core samples and their interactions within the community and with the environment on the sampled sites. We also detected two cyanobacterial species from the ancient ice core samples, and these OTUs are shared with those from the modern glacier surface. These OTUs detected from the ice core have been revealed to be distributed on glaciers all over Asia and in polar regions, and they also show regional adaptations shaped by dispersal limitations.

Research Products

• [Int'l Joint Research] Natural History Museum of Denmark(Denmark)
• [Int'l Joint Research] Natural History Museum of Denmark(Denmark)
• [Journal Article] Noviherbaspirillum denitrificans sp. nov., denitrifying bacterium isolated from rice paddy soil and Noviherbaspirillum autotrophicum sp. nov, denitrifying, facultatively autotrophic bacterium isolated from rice paddy soil, and proposal to reclassify Herbaspirillum massiliense as Noviherbaspirillum massiliense comb. nov. (2017)
  • Author(s): Satoshi Ishii, Naoaki Ashida; Hiroki Ohno, Takahiro Segawa, Shuhei Yabe, Shigeto Otsuka, Akira Yokota, Keishi Senoo
  • Journal Title: Journal of Systematic and Evolutionary Microbiology Volume: －
  • Peer Reviewed
• [Journal Article] Bacterial Microbiota Associated with the Glacier Ice Worm Is Dominated by Both Worm-Specific and Glacier-Derived Facultative Lineages (2017)
  • Author(s): Takumi Murakami, Takahiro Segawa, Roman Dial,Nozomu Takeuchi, Shiro Kohshima, Yuichi Hongoh
  • Journal Title: Microbes and Environments Volume: 32 Issue: 1 Pages: 32-39
  • DOI: 10.1264/jsme2.ME16158
  • NAID: 130005519588
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] Removal of human pathogenic viruses in a down-flow hanging sponge (DHS) reactor treating municipal wastewater and health risk of the use of effluent for agricultural irrigation (2017)
  • Author(s): Kobayashi, N., Oshiki, M., Ito, T., Segawa, T., Hatamoto, M., Kato, T., Yamaguchi, T., Kubota, K., Takahashi, M., Iguchi, A., Tagawa, T., Okubo, T., Uemura, S., Harada, H., Motoyama, T., Araki, N., Sano, D.
  • Journal Title: Water Research Volume: 110 Pages: 389-398
  • DOI: 10.1016/j.watres.2016.10.054
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Phylogenomics and morphology of extinct paleognaths reveal the origin and evolution of the ratites (2017)
  • Author(s): Takahiro Yonezawa, Takahiro Segawa, Hiroshi Mori, Paula F. Campos, Yuichi Hongoh et al.,
  • Journal Title: Current Biology Volume: 27 Issue: 1 Pages: 68-77
  • DOI: 10.1016/j.cub.2016.10.029
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] 氷河・積雪上の微生物の生態 (2016)
  • Author(s): 瀬川高弘、竹内望
  • Journal Title: 日本微生物生態学会誌 Volume: 21 Pages: 57-64
  • NAID: 130005568030
  • Peer Reviewed
• [Journal Article] Evaluating the Phylogenetic Status of the Extinct Japanese Otter on the Basis of Mitochondrial Genome Analysis (2016)
  • Author(s): Daisuke Waku, Takahiro Segawa, Takahiro Yonezawa, Ayumi Akiyoshi, Taichiro Ishige, Miya Ueda, Hiroshi Ogawa, Hiroshi Sasaki, Motokazu Ando, Naoki Kohno, Takeshi Sasaki
  • Journal Title: PLoS ONE Volume: 11 Issue: 3 Pages: e0149341-e0149341
  • DOI: 10.1371/journal.pone.0149341
  • Peer Reviewed / Open Access
• [Journal Article] Cecal bacterial communities in wild Japanese rock ptarmigans and captive Svalbard rock ptarmigans (2016)
  • Author(s): Kazunari USHIDA, Takahiro SEGAWA, Sayaka TSUCHIDA and Koichi MURATA
  • Journal Title: Journal of Veterinary Medical Science Volume: 78 Issue: 2 Pages: 251-257
  • DOI: 10.1292/jvms.15-0313
  • NAID: 130005131334
  • ISSN: 0916-7250, 1347-7439
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Census of bacterial microbiota associated with the glacier ice worm (2015)
  • Author(s): Murakami T., Segawa T., Bodington D., Dial R., Takeuchi N., Kohshima S., Hongoh Y.
  • Journal Title: FEMS Microbiology Ecology Volume: 91(3) Issue: 3 Pages: 1-10
  • DOI: 10.1093/femsec/fiv003
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Effects of dissolved oxygen and pH on nitrous oxide production rates in autotrophic partial nitrification granules (2015)
  • Author(s): Lashitha Rathnayake, Mamoru Oshiki, Satoshi Ishii, Takahiro Segawa, Hisashi Satoh, Satoshi Okabe
  • Journal Title: Bioresource Technology Volume: 197 Pages: 15-22
  • DOI: 10.1016/j.biortech.2015.08.054
  • NAID: 120006366471
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] The nitrogen cycle in cryoconites: naturally occurring nitrification-denitrification granules on a glacier (2014)
  • Author(s): Segawa, T., Ishii, S., Ohte, N., Akiyoshi, A., Yamada, A., Maruyama, F., Li, Z., Hongoh, Y. and Takeuchi, N
  • Journal Title: Environmental Microbiology Volume: 16 Issue: 10 Pages: 3250-3262
  • DOI: 10.1111/1462-2920.12543
  • Peer Reviewed / Open Access
• [Journal Article] Microfluidic quantitative PCR for simultaneous quantification of multiple viruses in environmental water samples (2014)
  • Author(s): Satoshi Ishii, Gaku Kitamura, Ayano Kobayashi, Takayuki Miura, Daisuke Sano, Satoshi Okabe
  • Journal Title: Applied and Environmental Microbiology Volume: 80(24) Issue: 24 Pages: 7505-7511
  • DOI: 10.1128/aem.02578-14
  • Peer Reviewed
• [Presentation] 大気を介した薬剤耐性菌の越境移動―氷河雪氷中の耐性遺伝子 (2017)
  • Author(s): 牛田一成，瀬川高弘
  • Organizer: 第90回 日本細菌学会総会
  • Place of Presentation: 仙台国際センター（宮城県・仙台市）
• [Presentation] 渡り鳥を介した病原細菌移動 (2017)
  • Author(s): 小林真弓，Qian Zhang，瀬川高弘，岡部聡，石井聡
  • Organizer: 第90回 日本細菌学会総会
  • Place of Presentation: 仙台国際センター（宮城県・仙台市）
• [Presentation] 熱帯氷河のバクテリア群集：ウガンダとケニアの氷河の比較から (2016)
  • Author(s): 植竹淳、瀬川高弘、本山秀明、内田雅己
  • Organizer: 日本微生物生態学会第31回大会
  • Place of Presentation: 横須賀市文化会館（神奈川県・横須賀市）
  • Year and Date: 2016-10-23
• [Presentation] 氷河生態系と氷河の暗色化 アジアと北極の氷河の生態系比較 (2016)
  • Author(s): 竹内望,田中聡太,大手信人,植竹淳,永塚尚子,瀬川高弘
  • Organizer: 2016年雪氷学会全国大会
  • Place of Presentation: 名古屋大学（愛知県・名古屋市）
  • Year and Date: 2016-09-28
• [Presentation] Nitrogen Cycling Evaluation (NiCE) chip to quantify and sequence all functional genes for N cycle simultaneously (2016)
  • Author(s): Mamoru Oshiki, Takahiro Segawa, Satoshi Ishii
  • Organizer: ASM General Meeting
  • Place of Presentation: Boston（アメリカ）
  • Year and Date: 2016-06-16
  • Int'l Joint Research
• [Presentation] Nitrogen cycle in cryoconites: naturally-occurring nitrification-denitrification granules on a glacier in Central Asia (2016)
  • Author(s): Takahiro Segawa, Satoshi Ishii, Nobuto Ohte, Zhongqin Li, Yuichi Hongoh, Nozomu Takeuchi
  • Organizer: 26th Goldschmidt Conference
  • Place of Presentation: パシフィコ横浜（神奈川県・横浜市）
  • Int'l Joint Research
• [Presentation] Distinctive nitrogen cycles between Asian and polar glaciers (2016)
  • Author(s): Nozomu TAKEUCHI, Nobuhito Ote, Takahiro Segawa, Jun Uetake, Naoko Nagatsuka, Zhongqin Li
  • Organizer: 26th Goldschmidt Conference
  • Place of Presentation: パシフィコ横浜（神奈川県・横浜市）
  • Int'l Joint Research
• [Presentation] 氷床アイスコアや絶滅生物の遺伝子分析から見えてきた古代DNA解析 (2015)
  • Author(s): 瀬川高弘，森宙史，米澤隆弘，秋好歩美，長谷川政美，本山秀明
  • Organizer: 極域科学シンポジウム
  • Place of Presentation: 東京
  • Year and Date: 2015-11-16
• [Presentation] The nitrogen cycle in cryoconites: naturally occurring nitrification-denitrification granules on a glacier (2015)
  • Author(s): Takahiro Segawa, Satoshi Ishii, Nobuhito Ohte, Zhongqin Li, Yuichi Hongoh, and Nozomu Takeuchi
  • Organizer: 6th International Conference on Polar and Alpine Microbiology
  • Place of Presentation: チェコ共和国
  • Year and Date: 2015-09-06
  • Int'l Joint Research
• [Presentation] SURVEY OF THE GLAICER INVERTEBRATES AND THEIR GUT MICROBIOTA (2015)
  • Author(s): Takumi Murakami, Takahiro Segawa, Dylan Bodington, Nozomu Takeuchi, Pedro Labarca, Gonzalo Barcaza Sepulveda, Shiro Kohshima and Yuichi Hongoh
  • Organizer: 6th International Conference on Polar and Alpine Microbiology
  • Place of Presentation: チェコ共和国
  • Year and Date: 2015-09-06
  • Int'l Joint Research
• [Presentation] Bacterial diversity in tropical glacier and glacier foreland in Uganda (2015)
  • Author(s): Jun Uetake, Takahiro Segawa, Kosuke Hara, Samyn Denis, Hideaki Motoyama
  • Organizer: 6th International Conference on Polar and Alpine Microbiology
  • Place of Presentation: チェコ共和国
  • Year and Date: 2015-09-06
  • Int'l Joint Research
• [Presentation] キルギス・グレゴリア氷河のアイスコア試料を用いたシアノバクテリアの遺伝子解析 (2015)
  • Author(s): 瀬川 高弘、竹内望、米澤隆弘
  • Organizer: 地球惑星科学連合大会
  • Place of Presentation: 幕張メッセ
  • Year and Date: 2015-05-26
• [Presentation] 氷河生態系における窒素循環に関わる微生物の生態解析 (2014)
  • Author(s): 瀬川高弘、石井聡、本山秀明、本郷裕一、竹内望
  • Organizer: 第5回極域科学シンポジウム
  • Place of Presentation: 東京
  • Year and Date: 2014-12-03
• [Presentation] グリーンランド北西部、カナック氷河におけるクリオコナイト粒の形成過程とその分布 (2014)
  • Author(s): 植竹 淳, 瀬川 高弘, 永塚 尚子, 田中 聡太, 竹内 望, 本山 秀明, 青木 輝夫
  • Organizer: 日本雪氷学会
  • Place of Presentation: 青森
  • Year and Date: 2014-09-20
• [Book] Evaluation of Anthropogenic Impacts on Nature by Analyzing the Distribution of Antibiotic Resistance Genes in a Glacier Environment. In Antibiotic Resistance Genes in Natural Environments and Long-Term Effects (2017)
  • Author(s): Takahiro Segawa and Kazunari Ushida
  • Publisher: Nova Science publishers