Fluctuation in the size of species-specific repetitive DNA of hominoids: quantitative analysis by comparative genomics

• Project/Area Number: 24370098
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Partial Multi-year Fund
• Section: 一般
• Research Field: Physical anthropology
• Research Institution: Kyoto University
• Principal Investigator: KOGA Akihiko 京都大学, 霊長類研究所, 教授 (80192574)
• Co-Investigator(Kenkyū-buntansha): SHIMADA Atsuko 東京大学, 大学院理学系研究科, 助教 (20376552)
• Project Period (FY): 2012-04-01 – 2015-03-31
• Project Status: Completed (Fiscal Year 2014)
• Budget Amount: ¥17,160,000 (Direct Cost: ¥13,200,000、Indirect Cost: ¥3,960,000); Fiscal Year 2014: ¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000); Fiscal Year 2013: ¥6,370,000 (Direct Cost: ¥4,900,000、Indirect Cost: ¥1,470,000); Fiscal Year 2012: ¥6,890,000 (Direct Cost: ¥5,300,000、Indirect Cost: ¥1,590,000)
• Keywords: ゲノム / 反復配列 / サテライトＤＮＡ / ヒト / 霊長類 / 分子進化 / セントロメア / 高次構造 / 進化的起源 / 進化 / 遺伝学 / 人類学

Outline of Final Research Achievements

Repetitive sequences occupy large fractions of their host genomes, and their organization is thought to undergo considerable changes in evolutionary processes. The purpose of the present study was to reveal actual changes that had occurred in the evolution of hominoids. Main results and their significance were: (1) alpha satellite DNA has been replaced by another repetitive DNA in a gibbon genome, (2) a novel transposon was, and can be in the future, formed and expanded in hominoid genomes, and (3) the evolutionary origin of the higher-order repeat structure of alpha satellite DNA is older than that commonly postulated.

Research Products

• [Journal Article] Higher-order repeat structure in alpha satellite DNA occurs in New World monkeys and is not confined to hominoids (2015)
  • Author(s): Sujiwattanarat P, Thapana W, Srikulnath K, Hirai Y, Hirai H, *Koga A
  • Journal Title: Scientific Reports Volume: 未定
  • NAID: 120005758209
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Reduction in the structural instability of cloned eukaryotic tandem-repeat DNA by low-temperature culturing of host bacteria (2014)
  • Author(s): Watcharaporn Thapana, Penporn Sujiwattanarat, Kornsorn Srikulnath, Hirohisa Hirai, and Akihiko Koga
  • Journal Title: Genetics Research Volume: 96
  • DOI: 10.1017/s0016672314000172
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Novel variable number of tandem repeats of gibbon MAOA gene and its evolutionary significance (2014)
  • Author(s): Y. Choi, Y.-D. Jung, S. Ayarpadikannan, A. Koga, H. Imai, H. Hirai, C. Roos,and H.-S. Kim
  • Journal Title: Genome Volume: 57 Issue: 8 Pages: 427-432
  • DOI: 10.1139/gen-2014-0065
  • Peer Reviewed
• [Journal Article] Locational diversity of alpha satellite DNA and intergeneric hybridization aspects in the Nomascus and Hylobates genera of small apes (2014)
  • Author(s): Baicharoen S, Miyabe-Nishiwaki T, Arsaithamkul V, Hirai Y, Duangsa-ard K, Siriaroonrat B, Domae H, Srikulnath K, Koga A, *Hirai H
  • Journal Title: PLOS ONE Volume: 9 Issue: 10 Pages: e109151-e109151
  • DOI: 10.1371/journal.pone.0109151
  • Peer Reviewed / Open Access
• [Journal Article] Evolutionary origin of higher-order repeat structure in alpha satellite DNA of primate centromeres (2014)
  • Author(s): *Koga A, Hirai Y, Terada S, Jahan I, Baicharoen S, Arsaithamkul V, Hirai H
  • Journal Title: DNA Research Volume: 未定
  • NAID: 120005477727
  • Peer Reviewed
• [Journal Article] Heterochromatin blocks constituting the entire short arms of acrocentric chromosomes of Azara's owl monkey : formation processes inferred from chromosomal locations (2013)
  • Author(s): Prakhongcheep O, Chaiprasertsri N, Terada S, Hirai Y, Srikulnath K, Hirai H, Koga A
  • Journal Title: DNA Research Volume: 20 Issue: 5 Pages: 461-470
  • DOI: 10.1093/dnares/dst023
  • NAID: 120005343928
  • Peer Reviewed
• [Journal Article] Higher-order repeat structure in alpha satellite DNA is an attribute of hominoids rather than hominids (2013)
  • Author(s): Terada S, Hirai Y, Hirai H, Koga A
  • Journal Title: Journal of Human Genetics Volume: 58 Issue: 11 Pages: 752-754
  • DOI: 10.1038/jhg.2013.87
  • NAID: 40019875182
  • Peer Reviewed
• [Journal Article] Two Types of Alpha Satellite DNA in Distinct Chromosomal Locations in Azara's Owl Monkey (2013)
  • Author(s): Prakhongcheep O, Hirai Y, Hara T, Srikulnath K, Hirai H, Koga A
  • Journal Title: DNA Research Volume: 20 Issue: 3 Pages: 235-240
  • DOI: 10.1093/dnares/dst004
  • NAID: 120005333914
  • Peer Reviewed
• [Journal Article] repeat sequences evolutionarily related to SVA-type retrotransposons are expanded in the centromere region of the western hoolock gibbon, a small ape (2012)
  • Author(s): Hara T, Hirai Y, Jahan I, Hirai H, Koga A
  • Journal Title: Journal of Human Genetics Volume: 57 Issue: 12 Pages: 760-765
  • DOI: 10.1038/jhg.2012.107
  • Peer Reviewed
• [Presentation] DNA-based transposable elements as natural mutators in vertebrate genomes (2014)
  • Author(s): Akihiko Koga
  • Organizer: 2014 International Conference of the Korean Society for Molecular and Cellular Biology
  • Place of Presentation: COEX (Seoul, Korea)
  • Year and Date: 2014-10-21 – 2014-10-23
  • Invited
• [Presentation] Higher-order repeat structure in centromeric repetitive DNA is not confined to central regions (2014)
  • Author(s): Penporn Sujiwattanarat, Watcharaporn Thapana, Kornsorn Srikulnath, 平井啓久, 古賀章彦
  • Organizer: 日本進化学会第16回大阪大会
  • Place of Presentation: 高槻現代劇場（大阪府高槻市）
  • Year and Date: 2014-08-21 – 2014-08-24
• [Presentation] Incredible gibbon alpha-satellite: evolutionary origin of higher-order repeat structure (2014)
  • Author(s): Akihiko Koga, Yuriko Hirai, Israt Jahan, Sudarath Baicharoen, Visit Arsaithamkul, Hirohisa Hirai
  • Organizer: 25th International Primatological Society Congress
  • Place of Presentation: Melia Hanoi Hotel (Hanoi, Vietnam)
  • Year and Date: 2014-08-11 – 2014-08-16
• [Presentation] ヨザルの染色体変異に関与したと考えられる大規模反復配列 (2014)
  • Author(s): 古賀章彦, Ornjira Prakhongcheep, Nampech Chaiprasertsri, 平井百合子, 平井啓久
  • Organizer: 第３０回日本霊長類学会大会
  • Place of Presentation: 大阪科学技術センター（大阪市）
  • Year and Date: 2014-07-04 – 2014-07-06
• [Presentation] ヒト科とテナガザル科におけるセントロメア反復配列高次構造の起源 (2013)
  • Author(s): 寺田祥子、平井百合子、平井啓久、古賀章彦
  • Organizer: 第２９回日本霊長類学会・日本哺乳類学会２０１３年度合同大会
  • Place of Presentation: 岡山理科大学（岡山市）
• [Presentation] セントロメアを構成する反復配列の高次構造はヒト科ではなくヒト上科の特性である (2013)
  • Author(s): 古賀章彦、平井百合子、寺田祥子、平井啓久
  • Organizer: 日本遺伝学会第８５回大会
  • Place of Presentation: 慶応義塾大学日吉キャンパス（横浜市）
• [Presentation] Possible genomic impact of SVA retrotransposon in humans similar to that in gibbons (2012)
  • Author(s): Hara T, Hirai Y, Hirai H, Koga A
  • Organizer: Annulal Meeting of the American Society of Human Genetics
  • Place of Presentation: Moscone Center (アメリカ)
  • Year and Date: 2012-11-08
• [Presentation] ヨザルのヘテロクロマチンを構成する切れやすそうな縦列反復配列 : 染色体構成の急速な変化への関与に関する仮説 (2012)
  • Author(s): 古賀章彦・平井百合子・オーンプラコンチ・平井啓久
  • Organizer: 日本遺伝学会第84回大会
  • Place of Presentation: 九州大学(福岡市)
  • Year and Date: 2012-09-26
• [Presentation] 反復配列の増減を指標としたテナガザル科4属の系統関係推定の試み (2012)
  • Author(s): 寺田祥子・平井百合子・平井啓久・古賀章彦
  • Organizer: 日本進化学会第14回大会
  • Place of Presentation: 九州大学(福岡市)
  • Year and Date: 2012-09-26
• [Presentation] テナガザルにみられるトランスポゾンのゲノムへの影響: 新規因子の形成と増幅 (2012)
  • Author(s): 原暢・古賀章彦・スダラバイシャルン・平井百合子・平井啓久
  • Organizer: 第28回日本霊長類学会大会
  • Place of Presentation: 椙山女学園大学(名古屋市)
  • Year and Date: 2012-07-07