Transcriptome analysis using an isolated nephron segment to identify important factors for euryhalinity of fish

• Project/Area Number: 26650110
• Research Category: Grant-in-Aid for Challenging Exploratory Research
• Allocation Type: Multi-year Fund
• Research Field: Morphology/Structure
• Research Institution: The University of Tokyo
• Principal Investigator: HYODO SUSUMU 東京大学, 大気海洋研究所, 准教授 (40222244)
• Co-Investigator(Kenkyū-buntansha): KURAKU SHIGEHIRO 国立研究開発法人理化学研究所, ライフサイエンス技術基盤研究センター, ユニットリーダー (40391940)
• Project Period (FY): 2014-04-01 – 2016-03-31
• Project Status: Completed (Fiscal Year 2015)
• Budget Amount: ¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000); Fiscal Year 2015: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000); Fiscal Year 2014: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
• Keywords: 広塩性 / オオメジロザメ / 腎臓 / ネフロン / 膜輸送体 / ホルモン / プロラクチン / 軟骨魚類 / 水電解質代謝 / 再吸収 / RNA-seq / 腎ネフロン

Outline of Final Research Achievements

The aim of this study is to identify crucial factors that contribute to the euryhalinity of fish by using bull shark (Carcharhinus leucas), a unique euryhaline species in cartilaginous fishes, as a model organism. We conducted RNA-seq of bull shark kidney using seawater- and freshwater-acclimated fish, and have found a large number of important genes; expression levels of which were considerably up-regulated or down-regulated following the freshwater acclimation. The late distal tubule and the collecting tubule of the bull shark nephron are considered to be crucial segments for the euryhalinity of bull shark. We successfully found candidate factors important for the euryhalinity, such as prolactin, insulin-like growth factors, and stanniocarcin.

Research Products

• [Int'l Joint Research] ディーキン大学/タスマニア大学(オーストラリア)
• [Int'l Joint Research] ハワイ大学(米国)
• [Journal Article] Distribution and dynamics of branchial ionocytes in houndshark reared in full-strength and diluted seawater environments (2016)
  • Author(s): Souichirou Takabe, Mayu Inokuchi, Yoko Yamaguchi and Susumu Hyodo
  • Journal Title: Comparative Biochemistry and Physiology, PartA Volume: 198 Pages: 22-32
  • DOI: 10.1016/j.cbpa.2016.03.019
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Morphological and molecular investigations of the holocephalan elephant fish nephron: the existence of a countercurrent-like configuration and two separate diluting segments in the distal tubule. (2015)
  • Author(s): Kakumura, K., Takabe, S., Takagi, W., Hasegawa, K., Konno, N., Bell, J., Toop, T., Donald, J., Kaneko, T., and Hyodo, S.
  • Journal Title: Cell and Tissue Research Volume: 362 Issue: 3 Pages: 677-688
  • DOI: 10.1007/s00441-015-2234-4
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] A shift in anterior-posterior positional information underlies the fin-to limb evolution. (2015)
  • Author(s): Onimaru, K., Kuraku, S., Takagi, W., Hyodo, S., Sharpe, J. and Tanaka, M.
  • Journal Title: eLife Volume: 4
  • DOI: 10.7554/elife.07048
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Neurohypophysial hormones regulate the amphibious behavior in the mudskipper goby (2015)
  • Author(s): Sakamoto et al.
  • Journal Title: PLoS ONE Volume: 10 Issue: 7 Pages: 1-16
  • DOI: 10.1371/journal.pone.0134605
  • Peer Reviewed / Open Access
• [Journal Article] Discovery of conventional prolactin from the holocephalan elephant fish, Callorhinchus milii. (2015)
  • Author(s): Yamaguchi, Y., Takagi, W., Kuraku, S., Moriyama, S., Bell, J.D., Seale, A.P., Lerner, D.T., Grau, E.G. and Hyodo, S.
  • Journal Title: General and Comparative Endocrinology Volume: 224 Pages: 216-227
  • DOI: 10.1016/j.ygcen.2015.08.020
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Evolution of retinoic acid receptors in chordates: insights from three lamprey species, Lampetra fluviatilis, Petromyzon marinus and Lethenteron japonicum. (2015)
  • Author(s): Campo-Paysaa, F., Jandzik, D., Takio-Ogawa, Y., Cattell, M. V, Neef, H. C., Langeland, J. A., Kuratani, S., Medeiros, D. M., Mazan, S., Kuraku, S., Laudet, V., and Schubert, M.
  • Journal Title: EvoDevo Volume: 6 Issue: 1 Pages: 18-18
  • DOI: 10.1186/s13227-015-0016-4
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Optimization and cost-saving in tagmentation-based mate-pair library preparation and sequencing. (2015)
  • Author(s): Tatsumi, K., Nishimura, O., Itomi, K., Tanegashima, C. and Kuraku, S.
  • Journal Title: Biotechniques Volume: 58 Issue: 5 Pages: 253-257
  • DOI: 10.2144/000114288
  • Peer Reviewed
• [Journal Article] Reevaluating Emx gene phylogeny: homopolymeric amino acid tracts as a potential factor obscuring orthology signals in cyclostome genes. (2015)
  • Author(s): Noro, M., Sugahara, F. and Kuraku, S.
  • Journal Title: BMC Evolutionary Biology Volume: 15 Issue: 1 Pages: 78-78
  • DOI: 10.1186/s12862-015-0351-z
  • Peer Reviewed / Open Access
• [Journal Article] Optimizing and benchmarking de novo transcriptome sequencing: from library preparation to assembly evaluation. (2015)
  • Author(s): Hara, Y., Tatsumi, K., Yoshida, M., Kajikawa, E., Kiyonari, H. and Kuraku S.
  • Journal Title: BMC Genomics Volume: 16 Issue: 1 Pages: 977-977
  • DOI: 10.1186/s12864-015-2007-1
  • Peer Reviewed / Open Access
• [Journal Article] Urea-based osmoregulation in the developing embryo of oviparous cartilaginous fish (Callorhinchus milii) : contribution of the extraembryonic yolk sac during the early developmental period (2014)
  • Author(s): Takagi, l., Kajimura, M., Tanaka, H., Hasegawa, K., Bell, J. D., Toop, T., Donald, J. A. and Hyoda., S.
  • Journal Title: Journal of Experimental Biology Volume: 217 Pages: 1353-1362
  • DOI: 10.1242/jeb.094649
  • Peer Reviewed
• [Journal Article] Morphological and functional characteristics of the kidney of cartilaginous fishes: with special reference to urea reabsorption. (2014)
  • Author(s): Hyodo, S., Kakumura, K., Takagi, W., Hasegawa, K. and Yamaguchi, Y.
  • Journal Title: American Journal of Physiology Regulatory and Integrative Comparative Physiology Volume: 307 Issue: 12 Pages: R1381-R1395
  • DOI: 10.1152/ajpregu.00033.2014
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Evolution of the vertebrate Pax4/6 class of genes with focus on its novel member, the Pax10 gene. (2014)
  • Author(s): Feiner, N., Meyer, A. and Kuraku, S.
  • Journal Title: Genome Biology and Evolution Volume: 6 Issue: 7 Pages: 1635-1651
  • DOI: 10.1093/gbe/evu135
  • Peer Reviewed
• [Journal Article] Mechanisms of endoderm formation in a cartilaginous fish reveal ancestral and homoplastic traits in jawed vertebrates. (2014)
  • Author(s): Godard, B.G., Coolen, M., Le Panse, S., Gombault, A., Ferreiro-Galve, S., Laguerre, L., Lagadec, R., Wincker, P., Poulain, J., Da Silva, C., Kuraku, S., Carre, W., Boutet, A. and Mazan, S.
  • Journal Title: Biology Open Volume: 3 Issue: 11 Pages: 1098-1107
  • DOI: 10.1242/bio.20148037
  • Peer Reviewed / Open Access
• [Presentation] 広塩性軟骨魚オオメジロザメの腎機能に関する分子生理学的研究 (2016)
  • Author(s): 今関到、工樂樹洋、原雄一郎、兵藤晋
  • Organizer: 平成28年度日本水産学会春季大会
  • Place of Presentation: 東京海洋大学品川キャンパス、東京
  • Year and Date: 2016-03-26
• [Presentation] Dynamics of plasma corticosteroid in cannulated houndsharks under various stress condition. (2015)
  • Author(s): Ayuko Iki and Susumu Hyodo
  • Organizer: 日本比較内分泌学会第40回大会（CompBiol 2015）
  • Place of Presentation: JMSアステールプラザ、広島
  • Year and Date: 2015-12-11
• [Presentation] Distribution and function of neurohypophysial hormone receptors in catshark. (2015)
  • Author(s): Natsuki Inoue, Yoko Yamaguchi, Hiroyuki Kaiya, Shigehiro Kuraku and Susumu Hyodo
  • Organizer: 日本比較内分泌学会第40回大会（CompBiol 2015）
  • Place of Presentation: JMSアステールプラザ、広島
  • Year and Date: 2015-12-11
• [Presentation] アクアポリンの局在から明らかとなった軟骨魚類腎臓における尿素再吸収機構 (2015)
  • Author(s): 長谷川久美、角村佳吾、兵藤晋
  • Organizer: 日本動物学会第86回大会
  • Place of Presentation: 新潟コンベンションセンター 朱鷺メッセ、新潟
  • Year and Date: 2015-09-17
• [Presentation] トラザメの下垂体における糖タンパク質ホルモンcDNAのクローニングと発現部位の同定 (2015)
  • Author(s): 内田勝久、井上夏紀、兵藤晋、香川浩彦
  • Organizer: 日本動物学会第86回大会
  • Place of Presentation: 新潟コンベンションセンター 朱鷺メッセ、新潟
  • Year and Date: 2015-09-17
• [Presentation] 両生類における新規AQPの同定及びAQPの分子進化 (2015)
  • Author(s): 石井凌、柴田侑毅、垣内裕貴、嘉手苅将、常磐俊大、兵藤晋、内山実、宇根有美、スタンリー ヒルヤード、長井孝紀、鈴木雅一
  • Organizer: 日本動物学会第86回大会
  • Place of Presentation: 新潟コンベンションセンター 朱鷺メッセ、新潟
  • Year and Date: 2015-09-17
• [Presentation] Assessing vertebrate homolog space (2015)
  • Author(s): Kuraku, S.
  • Organizer: 4th Quest for Orthologs Meeting
  • Place of Presentation: Barcelona Biomedical Research Park, Barcelona, Spain
  • Year and Date: 2015-05-25
  • Int'l Joint Research / Invited
• [Presentation] Vanishing phylogenetic signals? revisiting molecular phylogenies of cyclostome genes. (2015)
  • Author(s): Kuraku, S.
  • Organizer: Symposium on Palaeontological and molecular approaches to early vertebrate evolution
  • Place of Presentation: Uppsala University, Uppsala, Sweden
  • Year and Date: 2015-05-12
  • Int'l Joint Research / Invited
• [Presentation] 脊椎動物ファイローム～分子生物学の基本ツールとしての分子系統学へ～ (2014)
  • Author(s): 工樂樹洋
  • Organizer: 新学術領域「複合適応形質進化の遺伝子基盤解明」第7回オープンセミナー
  • Place of Presentation: 東京大学柏キャンパス、千葉
  • Year and Date: 2014-12-11 – 2014-12-12
  • Invited
• [Presentation] 軟骨魚類ゾウギンザメの脳下垂体からのプロラクチンの発見 (2014)
  • Author(s): 山口陽子、高木亙、工樂樹洋、森山俊介、兵藤晋
  • Organizer: 第85回日本動物学会大会
  • Place of Presentation: 東北大学、仙台、宮城
  • Year and Date: 2014-09-11 – 2014-09-13
• [Presentation] ２Ｒ全ゲノム重複説のその後：いま何が問題でなぜ難しいのか (2014)
  • Author(s): 工樂樹洋
  • Organizer: 第16回日本進化学会年会
  • Place of Presentation: 高槻現代劇場、高槻、大阪
  • Year and Date: 2014-08-21 – 2014-08-24
• [Presentation] Molecular-histochemical investigation of cartilaginous fish kidney (2014)
  • Author(s): Hyodo, S., Hasegawa, K., Takagi, W. and Kakumura, K.
  • Organizer: 11th International Congress on the Biology of Fish
  • Place of Presentation: Heriot-Watt University, Edinburgh, Scotland
  • Year and Date: 2014-08-03 – 2014-08-07
  • Invited
• [Presentation] A functional shift of urea-producing site from extraembryonic yolk sac to liver in the developing embryos of two oviparous cartilaginous fishes (2014)
  • Author(s): Takagi, W., Kajimura, M., Tanaka, H., Bell, J.D. amd Hyodo, S.
  • Organizer: 11th International Congress on the Biology of Fish
  • Place of Presentation: Heriot-Watt University, Edinburgh, Scotland
  • Year and Date: 2014-08-03 – 2014-08-07
  • Invited
• [Presentation] Revealing cryptic pan-vertebrate gene repertoire in developmental phylome (2014)
  • Author(s): Kuraku, S.
  • Organizer: The 5th meeting of the European Society for Evolutionary Developmental Biology
  • Place of Presentation: Vienna, Austria
  • Year and Date: 2014-07-22 – 2014-07-25
  • Invited
• [Book] Handbook of Hormones, Comparative Endocrinology for Basic and Clinical Research (2015)
  • Author(s): Hyodo, S.
  • Publisher: Neurohypophysial Hormone Family
• [Remarks] 東京大学大気海洋研究所・生理学分野・兵藤晋
  • URL: http://seiri-aori.org/index.php?id=12
• [Remarks] 理化学研究所・ライフサイエンス技術基盤研究センター・分子配列比較解析ユニット・工樂樹洋
  • URL: http://www2.clst.riken.jp/phylo/index.html
• [Remarks] 理化学研究所・ライフサイエンス技術基盤研究センター・分子配列比較解析ユニット・工樂樹洋
  • URL: http://www.clst.riken.jp/phylo/