• Search Research Projects
  • Search Researchers
  • How to Use
  1. Back to previous page

Genome adaptation during rice domestication

Planned Research

Project AreaSystematic study of chromosome adaptation
Project/Area Number 22125006
Research Category

Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)

Allocation TypeSingle-year Grants
Review Section Biological Sciences
Research InstitutionNational Institute of Agrobiological Sciences

Principal Investigator

IZAWA Takeshi  独立行政法人農業生物資源研究所, 植物科学研究領域, 上級研究員 (10263443)

Project Period (FY) 2010-04-01 – 2015-03-31
Project Status Completed (Fiscal Year 2014)
Budget Amount *help
¥116,870,000 (Direct Cost: ¥89,900,000、Indirect Cost: ¥26,970,000)
Fiscal Year 2014: ¥21,710,000 (Direct Cost: ¥16,700,000、Indirect Cost: ¥5,010,000)
Fiscal Year 2013: ¥22,880,000 (Direct Cost: ¥17,600,000、Indirect Cost: ¥5,280,000)
Fiscal Year 2012: ¥24,050,000 (Direct Cost: ¥18,500,000、Indirect Cost: ¥5,550,000)
Fiscal Year 2011: ¥23,790,000 (Direct Cost: ¥18,300,000、Indirect Cost: ¥5,490,000)
Fiscal Year 2010: ¥24,440,000 (Direct Cost: ¥18,800,000、Indirect Cost: ¥5,640,000)
Keywordsイネ / 栽培化 / 紫黒イネ / イントログレッション / ゲノム / 黒米 / アントシアニン / 遺伝子重複 / 脱粒性 / 大粒化 / エピジェネティック / 相同組み換え / DNA重複 / 異所発現 / エピアリル / 転写因子 / エピジェネティクス / DNAメチル化 / イントログレッシ
Outline of Final Research Achievements

The birth and spread of novel agronomical traits during crop domestication are complex events in plant evolution. Wild rice (Oryza rufipogon) has red grains due to accumulation of pro-anthocyanidins meanwhile most rice (Oryza sativa) varieties have white grains with a genetic defect allele in Rc bHLH gene. Some rice varieties that have black grains due to accumulation of anthocyanins are sporadically distributed in Asia although the birth and local spread of black rice remains unknown. Here, we show that the ectopic expression of another bHLH gene, Kala4, due to rearrangement of its promoter region is the origin of the black rice trait. The birth of black rice would have occurred in a subspecies Tropical Japonica and the causal alleles of Kala4 have spread to another subspecies Indica. Small sizes of genomic fragments of Tropical Japonica origins in some Indica varieties indicated that refined introgression occurred by natural crossbreeding during local spread of this trait.

Report

(6 results)
  • 2014 Annual Research Report   Final Research Report ( PDF )
  • 2013 Annual Research Report
  • 2012 Annual Research Report
  • 2011 Annual Research Report
  • 2010 Annual Research Report
  • Research Products

    (23 results)

All 2015 2014 2013 2012 2011 2010

All Journal Article (16 results) (of which Peer Reviewed: 12 results,  Open Access: 1 results,  Acknowledgement Compliant: 1 results) Presentation (7 results) (of which Invited: 2 results)

  • [Journal Article] Punctual transcriptional regulation by the rice circadian clock under fluctuating field conditions2015

    • Author(s)
      Matsuzaki J, Kawahara Y, Izawa T
    • Journal Title

      Plant Cell

      Volume: 27 Issue: 3 Pages: 633-633

    • DOI

      10.1105/tpc.114.135582

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Deciphering and prediction of plant dynamics under field conditions2015

    • Author(s)
      Izawa T
    • Journal Title

      Current Opinion in Plant Biology

      Volume: 24 Pages: 87-92

    • DOI

      10.1016/j.pbi.2015.02.003

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Critical gates in day-length recognition to control the photoperiodic flowering2014

    • Author(s)
      Osugi A, Izawa T
    • Journal Title

      Advances in Botanical Research

      Volume: 72 Pages: 103-130

    • DOI

      10.1016/b978-0-12-417162-6.00004-3

    • ISBN
      9780124171626
    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The coincidence of critical day length recognition for florigen gene expression and floral transition under long-day conditions in rice2013

    • Author(s)
      Itoh H, Izawa T
    • Journal Title

      Molecular Plant

      Volume: 6 Issue: 3 Pages: 635-649

    • DOI

      10.1093/mp/sst022

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The Coincidence of Critical Day Length Recognition for Florigen Gene Expression and Floral Transition under Long-Day Conditions in Rice.2013

    • Author(s)
      Itoh H Izawa T
    • Journal Title

      Mol Plant.

      Volume: on-line journal

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Deciphering and prediction of transcriptome dynamics under fluctuating field conditions2012

    • Author(s)
      Nagano A etal.
    • Journal Title

      Cell

      Volume: 151 Issue: 6 Pages: 1358-1369

    • DOI

      10.1016/j.cell.2012.10.048

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Physiological significance of the plant circadian clock in natural field conditions.2012

    • Author(s)
      Izawa T
    • Journal Title

      Plant Cell Environ

      Volume: 35 Issue: 10 Pages: 1729-1741

    • DOI

      10.1111/j.1365-3040.2012.02555.x

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A study of phytohormone biosynthetic gene expression using a circadian clock-related mutant in rice2011

    • Author(s)
      Itoh H, Izawa T
    • Journal Title

      Plant Signal Behav

      Volume: 6 Issue: 12 Pages: 1932-1936

    • DOI

      10.4161/psb.6.12.18207

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Molecular dissection of the roles of phytochrome in photoperiodic flowering in rice2011

    • Author(s)
      Osugi A, Itoh H, Ikeda-Kawakatsu K, Takano M, Izawa T
    • Journal Title

      Plant Physiol

      Volume: 157 Issue: 3 Pages: 1128-1137

    • DOI

      10.1104/pp.111.181792

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Os-GIGANTEA Confers Robust Diurnal Rhythms on the Global Transcriptome of Rice in the Field2011

    • Author(s)
      Izawa, T., et al
    • Journal Title

      Plant Cell

      Volume: 23(5) Issue: 5 Pages: 1741-55

    • DOI

      10.1105/tpc.111.083238

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Flowering time genes Heading date 1 and Early heading date 1 together control panicle development in rice2011

    • Author(s)
      Endo-Higashi N, Izawa T
    • Journal Title

      Plant Cell Physiol

      Volume: 52 Issue: 6 Pages: 1083-1094

    • DOI

      10.1093/pcp/pcr059

    • NAID

      10029712178

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 農業生産と体内時計の切っても切れない深い関係2011

    • Author(s)
      井澤毅
    • Journal Title

      体内時計の科学と産業応用(シーエムシー出版)

      Pages: 125-133

    • Related Report
      2011 Annual Research Report
  • [Journal Article] Photoperiodic Control of Flowering in the short-day Plant Oryza sativa2011

    • Author(s)
      Izawa T
    • Journal Title

      Photoperiodism(eds Nelson, Denlinger)(Somers Oxford University Press)

      Pages: 38-58

    • Related Report
      2011 Annual Research Report
  • [Journal Article] 光応答と開花制御-日の長さの変化を認識して花を咲かせるメカニズム-2011

    • Author(s)
      伊藤博紀、井澤毅
    • Journal Title

      細胞工学

      Volume: 30 Pages: 161-166

    • Related Report
      2010 Annual Research Report
  • [Journal Article] A pair of floral regulators sets critical day length for Hd3a florigen expression in rice.2010

    • Author(s)
      Itoh H, Nonoue Y, Yano M, Izawa T
    • Journal Title

      Nature Genetics

      Volume: 42 Pages: 635-638

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 一日に30分の日の長さの違いを認識できるイネの出穂期制御の潜在能力2010

    • Author(s)
      井澤毅
    • Journal Title

      米麦改良誌

      Pages: 2-10

    • Related Report
      2010 Annual Research Report
  • [Presentation] Time-keeping in rice under fluctuating field conditions2013

    • Author(s)
      Takeshi Izawa
    • Organizer
      GRC2013 : Chronobiology Circadian Rhythms: From Molecule to Man
    • Place of Presentation
      Salve Regina University Newport, RI
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] 栽培環境下での作物の遺伝子発現解析のすすめ2013

    • Author(s)
      井澤 毅
    • Organizer
      2013年植物科学シンポジウム 持続可能資源の開発に向けた植物科学
    • Place of Presentation
      東京品川 コクヨホール
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Transcriptome and association analyses of candidate genes associated with black rice phenotype2012

    • Author(s)
      Oguchi T, Maeda H, Yamaguchi T, Ebana K, Yano M, Ebitani T, Izawa T
    • Organizer
      Plant & Animal Genome XX Conference : P0771
    • Place of Presentation
      San Diego
    • Related Report
      2011 Annual Research Report
  • [Presentation] 水田で育ってるイネにとって、概日時計って本当に大切なの?2011

    • Author(s)
      井澤毅
    • Organizer
      時局生物学17(2):129
    • Place of Presentation
      名古屋大学(招待講演)
    • Year and Date
      2011-11-25
    • Related Report
      2011 Annual Research Report
  • [Presentation] 水田で生育しているイネにとっての生物時計と光信号伝達2011

    • Author(s)
      井澤毅
    • Organizer
      農業・工業原材料生産と光技術研究会:18
    • Place of Presentation
      浜松(招待講演)
    • Year and Date
      2011-10-13
    • Related Report
      2011 Annual Research Report
  • [Presentation] 稲の光周性花芽形成分子機構-限界日長認識の仕組み-2011

    • Author(s)
      井澤毅
    • Organizer
      園芸学研究10(別2):34-35
    • Place of Presentation
      岡山大学(招待講演)
    • Year and Date
      2011-09-24
    • Related Report
      2011 Annual Research Report
  • [Presentation] Molecular switch of critical day-length recognition in plants2011

    • Author(s)
      Izawa T
    • Organizer
      XII Congress of the European Biological Rhythms Society
    • Place of Presentation
      Oxford UK(招待講演)
    • Year and Date
      2011-08-22
    • Related Report
      2011 Annual Research Report

URL: 

Published: 2010-08-23   Modified: 2019-07-29  

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi