Establishment of new omics approach for the comprehensive analysis of the light sensing pathways

• Project/Area Number: 15H05578
• Research Category: Grant-in-Aid for Young Scientists (A)
• Allocation Type: Single-year Grants
• Research Field: Genome biology
• Research Institution: Toyohashi University of Technology
• Principal Investigator: Hirose Yuu 豊橋技術科学大学, 工学(系)研究科(研究院), 助教 (30616230)
• Project Period (FY): 2015-04-01 – 2018-03-31
• Project Status: Completed (Fiscal Year 2017)
• Budget Amount: ¥23,530,000 (Direct Cost: ¥18,100,000、Indirect Cost: ¥5,430,000); Fiscal Year 2017: ¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000); Fiscal Year 2016: ¥8,580,000 (Direct Cost: ¥6,600,000、Indirect Cost: ¥1,980,000); Fiscal Year 2015: ¥9,880,000 (Direct Cost: ¥7,600,000、Indirect Cost: ¥2,280,000)
• Keywords: 次世代シークエンサー / フォトーム / 光受容体 / シアノバクテリア / 藻類 / ゲノム / オプトジェネティクス / フィトクロム / 光合成 / 光応答 / 光スイッチ / トランスクリプトーム

Outline of Final Research Achievements

To understand the light-sensing network of living organisms, I developed new omics method named "Photome". This method utilizes the advantage of wide range of quantification of the next generation sequencer and the irradiation of multichromatic light with high resolution wavelength. I succeeded to establish highly efficient sample preparation method of photome and also automated pipeline for computing. This method can be applied to all living organism and will promote the progress of the wide research filed such as analysis of intrinsic light-sensing pathway or regulation of cellular response by light irradiation.

Research Products

• [Journal Article] Characterization of the Genuine Type 2 Chromatic Acclimation in the Two Geminocystis Cyanobacteria. (2017)
  • Author(s): Hirose Y., Misawa N., Yonekawa C., Nagao N., Watanabe M., Ikeuchi M. and Eki T.
  • Journal Title: DNA Res. Volume: 5(14) Issue: 4 Pages: 387-396
  • DOI: 10.1093/dnares/dsx011
  • Peer Reviewed / Open Access
• [Journal Article] Diverse molecular processes of chromatic acclimation in the cyanobacteria phylum. (2017)
  • Author(s): Hirose Y., Ikeuchi M. and Eki T.
  • Journal Title: Plant Morphol. Volume: 印刷中
  • NAID: 130006647120
  • Peer Reviewed / Open Access
• [Journal Article] Complete genome sequence of cyanobacterium Nostoc sp. NIES-3756, a potentially useful strain for phytochrome-based bioengineering. (2016)
  • Author(s): Hirose Y., Fujisawa T., Ohtsubo Y., Katayama M., Misawa N., Wakazuki S., Shimura Y., Nakamura Y., Kawachi M., Yoshikawa H., Eki T., and Kanesaki Y.
  • Journal Title: Journal of Biotechnology Volume: 220 Pages: 51-52
  • DOI: 10.1016/j.jbiotec.2015.12.002
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Complete genome sequencing of cyanobacterium Leptolyngbya sp. NIES-3755 Journal of Biotechnology. (2016)
  • Author(s): Hirose Y., Fujisawa T., Ohtsubo Y., Katayama M., Misawa N., Wakazuki S., Shimura Y., Nakamura Y., Kawachi M., Yoshikawa H., Eki T., and Kanesaki Y.
  • Journal Title: Genome Announcements Volume: 4 Issue: 2
  • DOI: 10.1128/genomea.00090-16
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Complete genome sequence of cyanobacterium Fischerella sp. NIES-3754, providing thermoresistant optogenetic tools. (2016)
  • Author(s): Hirose Y., Fujisawa T., Ohtsubo Y., Katayama M., Misawa N., Wakazuki S., Shimura Y., Nakamura Y., Kawachi M., Yoshikawa H., Eki T., and Kanesaki Y.
  • Journal Title: Journal of Biotechnology Volume: 220 Pages: 45-46
  • DOI: 10.1016/j.jbiotec.2016.01.011
  • Peer Reviewed / Int'l Joint Research
• [Presentation] 大腸菌の光応答の解析 (2018)
  • Author(s): 広瀬侑
  • Organizer: 第１２回長野ミーティング
• [Presentation] Leptolyngbya 属シアノバクテリアにおけるフィコエリスロシアニン調節型の補色順化の解析 (2017)
  • Author(s): 広瀬侑、長尾信義、米川千夏、渡辺麻衣、池内昌彦、浴俊彦
  • Organizer: 第５８回日本植物生理学会年会
  • Place of Presentation: 鹿児島大学郡元キャンパス
  • Year and Date: 2017-03-16
• [Presentation] Leptolyngbya 属シアノバクテリアの光合成装置の光色応答の解析 (2017)
  • Author(s): 広瀬侑、長尾信義、米川千夏、渡辺麻衣、池内昌彦、浴俊彦
  • Organizer: 第１１回日本ゲノム微生物学会年会
  • Place of Presentation: 慶應義塾大学湘南藤澤キャンパス
  • Year and Date: 2017-03-02
• [Presentation] シアノバクテリアのゲノム解析とそれを活用した補色応答現象の理解 (2016)
  • Author(s): 広瀬 侑、池内 昌彦、浴俊彦
  • Organizer: 第８０回日本植物学会年会
  • Place of Presentation: 沖縄コンベンションセンター
  • Year and Date: 2016-09-16
  • Invited
• [Presentation] シアノバクテリアGeminocystis sp. NIES-3708 および3709 株のゲノム比較 (2016)
  • Author(s): 広瀬侑、大坪嘉行、兼崎友、藤澤貴智、志村遥平、三澤直美、若月幸子、中村保一、河地正伸、池内昌彦、浴俊彦
  • Organizer: 第７回日本光合成学会年会
  • Place of Presentation: 東京理科大学葛飾キャンパス
  • Year and Date: 2016-05-27
• [Book] 生物の科学「遺伝」(微細藻類の多様な魅力：分類，進化，ゲノムから形態，藻類バイオまで) (2017)
  • Author(s): 広瀬 侑、池内 昌彦、浴俊彦
  • Publisher: NTS出版
• [Patent(Industrial Property Rights)] 多波長光照射装置 (2017)
  • Inventor(s): 広瀬 侑
  • Industrial Property Rights Holder: 広瀬 侑
  • Industrial Property Rights Type: 特許
  • Filing Date: 2017
  • Overseas
• [Patent(Industrial Property Rights)] 核酸分子およびこれを用いたタンパク質の製造方法 (2017)
  • Inventor(s): 広瀬侑
  • Industrial Property Rights Holder: 広瀬侑
  • Industrial Property Rights Type: 特許
  • Filing Date: 2017-03-01