Phylogenetic origin of Passeriformes, Falconiformes and Gruiformes based on retroposon insertions

• Project/Area Number: 22770080
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Single-year Grants
• Research Field: Biodiversity/Systematics
• Research Institution: Tokyo Institute of Technology
• Principal Investigator: NISHIHARA Hidenori 東京工業大学, 大学院・生命理工学研究科, 助教 (10450727)
• Project Period (FY): 2010 – 2011
• Project Status: Completed (Fiscal Year 2011)
• Budget Amount: ¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000); Fiscal Year 2011: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000); Fiscal Year 2010: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
• Keywords: 系統 / ゲノム / 進化 / 鳥類 / 転移因子

Research Abstract

Retoropozon insertion analysis was performed to reveal the phylogenetic relationships in Aves by using the whole genomic data of zebrafinch(Taeniopygia guttata) and the BAC sequence of condor. This study found that Raptores are polyphyletic and that divergence of Neoaves ancestor into higher-order lineages occurred in a short period of time. In addition, the phylogenetic analysis of Gruiformes identified a monophyletic clade called "core-group" with five retroposon insertion loci. This study revealed a complicated evolutionary history of Neoaves.

Research Products

• [Journal Article] Phylogeny of galactolipid synthase homologs together with their enzymatic analyses revealed a possible origin and divergence time for photosynthetic Membrane biogenesis (2012)
  • Author(s): Yuzawa, Y., Nishihara, H., Haraguchi, T., Masuda, S., Shimojima, M., Shimoyama, A., Yuasa, H., Okada, N., and Ohta, H.
  • Journal Title: DNA Res Volume: 19 Pages: 91-102
  • Peer Reviewed
• [Journal Article] Phylogeny of galactolipid synthase homologs together with their enzymatic analyses revealed a possible origin and divergence time for photosynthetic Membrane biogenesis (2012)
  • Author(s): Yuzawa Y, Nishihara H, Haraguchi T, Masuda S, Shimojima M, Shimoyama A, Yuasa H, Okada N, Ohta H
  • Journal Title: DNA Res Volume: 19 Issue: 1 Pages: 91-102
  • DOI: 10.1093/dnares/dsr044
  • Peer Reviewed
• [Journal Article] B chromosomes have a functional effect on female sex determination in Lake Victoria cichlid fishes (2011)
  • Author(s): Yoshida, K., Terai, Y., Mizoiri, S., Aibara, M., Nishihara, H., Watanabe, M., Kuroiwa, A., Hirai, H., Hirai, Y., Matsuda, Y., and Okada, N.
  • Journal Title: PLoS Genet Volume: 7
  • Peer Reviewed
• [Journal Article] A Mammalian Conserved Element Derived from SINE Displays Enhancer Properties Recapitulating Satb2 Expression in Early-Born Callosal Projection Neurons (2011)
  • Author(s): Tashiro, K., Teissier, A., Kobayashi, N., Nakanishi, A., Sasaki, T., Yan, K., Tarabykin, V., Vigier, L., Sumiyama, K., Hirakawa, M., Nishihara, H., Pierani, A., and Okada, N
  • Journal Title: PLoS ONE Volume: 6(12)
  • Peer Reviewed
• [Journal Article] Reverse evolution in RH1 for adaptation of cichlids to water depth in Lake Tanganyika (2011)
  • Author(s): Nagai, H., Terai, Y., Sugawara, T., Imai, H., Nishihara, H., Hori, M., and Okada, N.
  • Journal Title: Mol Biol Evol Volume: 28 Pages: 1769-1776
  • Peer Reviewed
• [Journal Article] A Mammalian Conserved Element Derived from SINE Displays Enhancer Properties Recapitulating Satb2 Expression in Early-Born Callosal Projection Neurons (2011)
  • Author(s): Tashiro K, Teissier A, Kobayashi N, Nakanishi A, Sasaki T, Yan K, Tarabykin V, Vigier L, Sumiyama K, Hirakawa M, Nishihara H, Pierani A, Okada N
  • Journal Title: PLoS One Volume: 6(12) Issue: 12 Pages: e28497-e28497
  • DOI: 10.1371/journal.pone.0028497
  • Peer Reviewed
• [Journal Article] B chromosomes have a functional effect on female sex determination in lake victoria cichlid fishes (2011)
  • Author(s): Yoshida K, Terai Y, Mizoiri S, Aibara M, Nishihara H, Watanabe M, Kuroiwa A, Hirai H, Hirai Y, Matsuda Y, Okada N
  • Journal Title: PLoS Genet Volume: 7(8) Issue: 8 Pages: e1002203-e1002203
  • DOI: 10.1371/journal.pgen.1002203
  • NAID: 120006627278
  • Peer Reviewed
• [Journal Article] Reverse Evolution in RH1 for adaptation of cichlids to water depth in Lake Tanganyika (2011)
  • Author(s): Nagai, H., Terai, Y., Sugawara, T., Imai, H., Nishihara, H., Hori, M.and Okada, N.
  • Journal Title: Molecular Biology and Evolution Volume: 28(6) Issue: 6 Pages: 1769-1776
  • DOI: 10.1093/molbev/msq344
  • Peer Reviewed
• [Journal Article] Reverse evolution in RH1 for adaptation of cichlids to water depth in Lake Tanganyika. (2011)
  • Author(s): Nagai H, Terai Y, Sugawara T, Imai H, Nishihara H, Hori M, Okada N.
  • Journal Title: Molecular Biology and Evolution Volume: (In press)
  • Peer Reviewed
• [Journal Article] Emergence of mammals by emergency : exaptation (2010)
  • Author(s): Okada, N., Sasaki, T., Shimogori, T., and Nishihara, H.
  • Journal Title: Genes Cells Volume: 15 Pages: 801-812
  • Peer Reviewed
• [Journal Article] Characterization of a novel SINE super family from invertebrates :"Ceph-SINEs" from the genomes of squids and cuttlefish (2010)
  • Author(s): Akasaki, T., Nikaido, M., Nishihara, H., Tsuchiya, K., Segawa, S., and Okada, N.
  • Journal Title: Gene Volume: 454 Pages: 8-19
  • Peer Reviewed
• [Journal Article] Emergence of mammals by emergency : exaptation. (2010)
  • Author(s): Okada N, Sasaki T, Shimogori T, Nishihara H.
  • Journal Title: Genes to Cells Volume: 15 Pages: 801-812
  • Peer Reviewed
• [Presentation] A Mammalian Conserved Element Derived from SINE Displays Enhancer Properties Recapitulating Satb2 Expression in Early-Born Callosal Projection Neurons (2012)
  • Author(s): Hidenori Nishihara
  • Organizer: The 59th NIBB Conference "NEOCORTICAL ORGANIZATION"
  • Place of Presentation: Okazaki Conference Center, Okazaki, Aichi
  • Year and Date: 2012-03-12
• [Presentation] Functional analysis of the SINE-derived enhancer for Satb2 expression in neocortex (2011)
  • Author(s): 西原秀典
  • Organizer: 日本進化学会第13回大会
  • Place of Presentation: 京都大学(京都)
  • Year and Date: 2011-07-31
• [Presentation] Molecular functional analysis of the neocortex-specific Satb2 enhancer derived from SINEs : Toward resolution of the evolutionary process of exaptation (2011)
  • Author(s): Hidenori Nishihara
  • Organizer: SMBE 2011-Annual Meeting of the Society for Molecular Biology and Evolution
  • Place of Presentation: Kyoto University, Kyoto
  • Year and Date: 2011-07-28
• [Presentation] 大陸移動と哺乳類の進化 (2010)
  • Author(s): 西原秀典、丸山茂徳、岡田典弘
  • Organizer: 日本進化学会
  • Place of Presentation: 東京
  • Year and Date: 2010-08-05
• [Presentation] レトロポゾンの挿入パターンを指標としたツル目の系統解析 (2009)
  • Author(s): 蔵本多恵、西原秀典、岡田典弘
  • Organizer: 日本分子生物学会年会
  • Place of Presentation: 横浜
  • Year and Date: 2009-12-12