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Study on vernalization mechanism of Brassica crops using newly developed Intromap, a bioinformatic tool to identify alien genomic introgression regions

Research Project

Project/Area Number 18H02173
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 39010:Science in plant genetics and breeding-related
Research InstitutionNiigata University

Principal Investigator

Okazaki Keiichi  新潟大学, 自然科学系, 教授 (20270936)

Co-Investigator(Kenkyū-buntansha) 深井 英吾  新潟大学, 自然科学系, 准教授 (00570657)
柿崎 智博  国立研究開発法人農業・食品産業技術総合研究機構, 野菜花き研究部門, 上級研究員 (30547229)
藤本 龍  神戸大学, 農学研究科, 准教授 (60620375)
板橋 悦子  国立研究開発法人農業・食品産業技術総合研究機構, 野菜花き研究部門, 主任研究員 (70783273)
Project Period (FY) 2018-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2020)
Budget Amount *help
¥17,420,000 (Direct Cost: ¥13,400,000、Indirect Cost: ¥4,020,000)
Fiscal Year 2020: ¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Fiscal Year 2019: ¥4,810,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥1,110,000)
Fiscal Year 2018: ¥8,580,000 (Direct Cost: ¥6,600,000、Indirect Cost: ¥1,980,000)
Keywords春化 / Brassica / エピジェネティクス / 遺伝子発現 / QTL / セイヨウナタネ / キャベツ / アブラナ科作物 / RNA-seq / ハクサイ / イントログレッション / RNAseq / エピゲノム / 遺伝育種
Outline of Final Research Achievements

In order to elucidate the vernalization mechanism of the genus Brassica, we did the following studies. We produced C-genome chromosome addition lines using BoFLC2-introgressed B. rapa as a recurrent parent and a cabbage as a c-genome chromosome donor, and characterized those lines with respect to the parental cultivars. In Chinese cabbage, the epigenetic regulation of gene expression at the FLC locus was clarified by RNA-seq, lncRNA analysis, and chromatin immunoprecipitation analysis. In addition, transcriptome analysis was performed on the leaves of the cabbage DH strain with/without low temperature treatment. QTL analysis was performed to determine vernalization characteristics of rapeseed cultivars using F2 populations derived from the crossing between seed vernalization typed rapeseed x green plant vernalization typed rapeseed.

Academic Significance and Societal Importance of the Research Achievements

B. oleraceaでは, BoFLC1について、低温および葉齢依存的な発現パターンに明確な品種間差があることが明らかになった。BoFLC1と晩抽性との関連性が明らかになれば, 晩抽性品種の育種の際にマーカー遺伝子として利用できる。B. rapaでは, FLCパラログの発現量と春化要求性との関連性を明らかにでき, BrFLC座のエピジェネティックな転写制御について新知見を得ることができた。農作物には, ムギ類, エンドウ, ソラマメ(種子春化), タマネギ, セロリ, ニンジン(緑体春化)など春化特性を持つものも多く、本研究で明らかにしたブラシカ属の知見が他作物での研究の参考となる。

Report

(4 results)
  • 2020 Annual Research Report   Final Research Report ( PDF )
  • 2019 Annual Research Report
  • 2018 Annual Research Report
  • Research Products

    (25 results)

All 2021 2020 2019 2018

All Journal Article (6 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 5 results,  Open Access: 5 results) Presentation (17 results) (of which Int'l Joint Research: 7 results) Book (2 results)

  • [Journal Article] Genome Triplication Leads to Transcriptional Divergence of FLOWERING LOCUS C Genes During Vernalization in the Genus Brassica2021

    • Author(s)
      Akter A, Itabashi E, Kakizaki T, Okazaki K, Dennis ES, Fujimoto R.
    • Journal Title

      Front Plant Sci

      Volume: 11 Pages: 619417-619417

    • DOI

      10.3389/fpls.2020.619417

    • NAID

      120006975756

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Gene Expression Analysis in Response to Vernalization in Chinese Cabbage (<i>Brassica rapa</i> L.)2020

    • Author(s)
      Ayasha Akter, Junji Miyazaki, Daniel J. Shea, Namiko Nishida, Satoko Takada, Naomi Miyaji, Hasan Mehraj, Motoki Shimizu, Md. Asad-ud Doullah, Takeshi Takasaki-Yasuda, Keiichi Okazaki, Ryo Fujimoto
    • Journal Title

      The Horticulture Journal

      Volume: 89 Issue: 3 Pages: 268-277

    • DOI

      10.2503/hortj.UTD-150

    • NAID

      130007834101

    • ISSN
      2189-0102, 2189-0110
    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] The histone modification H3 lysine 27 tri-methylation has conserved gene regulatory roles in the triplicated genome of Brassica rapa L.2019

    • Author(s)
      Akter A, Takahashi S, Deng W, Shea DJ, Itabashi E, Shimizu M, Miyaji N, Osabe K, Nishida N, Suzuki Y, Helliwell CA, Seki M, Peacock WJ, Dennis ES, Fujimoto R.
    • Journal Title

      DNA Research

      Volume: 26 Issue: 5 Pages: 433-443

    • DOI

      10.1093/dnares/dsz021

    • NAID

      120006786953

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] The role of FRIGIDA and FLOWERING LOCUS C genes in flowering time of Brassica rapa leafy vegetables.2019

    • Author(s)
      Satoko Takada, Ayasha Akter, Etsuko Itabashi, Namiko Nishida, Daniel J Shea, Naomi Miyaji, Hasan Mehraj, Kenji Osabe, Motoki Shimizu, Takeshi Takasaki-Yasuda, Tomohiro Kakizaki, Keiichi Okazaki, Elizabeth S Dennis, Ryo Fujimoto
    • Journal Title

      Scientific reports

      Volume: 9(1) Issue: 1 Pages: 13843-13843

    • DOI

      10.1038/s41598-019-50122-2

    • NAID

      120006733169

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Long noncoding RNAs in Brassica rapa L. following vernalization.2019

    • Author(s)
      Daniel J Shea, Namiko Nishida, Satoko Takada, Etsuko Itabashi, Satoshi Takahashi, Ayasha Akter, Naomi Miyaji, Kenji Osabe, Hasan Mehraj, Motoki Shimizu, Motoaki Seki, Tomohiro Kakizaki, Keiichi Okazaki, Elizabeth S Dennis, Ryo Fujimoto
    • Journal Title

      Scientific reports

      Volume: 9(1) Issue: 1 Pages: 9302-9302

    • DOI

      10.1038/s41598-019-45650-w

    • NAID

      120006653248

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Comparison of Cold Responses for Orthologs of Cabbage Vernalization-related Genes2019

    • Author(s)
      Etsuko Itabashi, Daniel J. Shea, Nobuko Fukino, Ryo Fujimoto, Keiichi Okazaki, Tomohiro Kakizaki, Takayoshi Ohara
    • Journal Title

      The Horticulture Journal

      Volume: 88 Issue: 4 Pages: 462-470

    • DOI

      10.2503/hortj.UTD-059

    • NAID

      130007734324

    • ISSN
      2189-0102, 2189-0110
    • Related Report
      2019 Annual Research Report
  • [Presentation] Characterization of FLOWERLING LOCUS C parlors in a late flowering line of Brassica rapa.2020

    • Author(s)
      Ayasha Akter, Ryo Fujimoto
    • Organizer
      Improvement of important agricultural traits based on genomic information of horticultural crops
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] キャベツ BoFLC2 導入ハクサイ系統の春化特性2020

    • Author(s)
      西田 菜美子, 岡崎 桂一, 藤本 龍
    • Organizer
      日本育種学会第137回講演会
    • Related Report
      2019 Annual Research Report
  • [Presentation] キャベツにおける春化応答性の品種間差とBoFLC2遺伝子の関係2020

    • Author(s)
      板橋 悦子, シェイ・ダニエル, 吹野 伸子, 藤本 龍, 岡崎 桂一, 柿崎 智博, 小原 隆由
    • Organizer
      日本育種学会第137回講演会,育種学研究22(別1)P.137
    • Related Report
      2019 Annual Research Report
  • [Presentation] Vernalization alters histone H3 lysine 27 trimethylation at FLC locus in Brassica rapa2019

    • Author(s)
      Ayasha Akter, Satoshi Takahashi, Namiko Nishida, Naomi Miyaji, Takeshi Yasuda, Yutaka Suzuki, Motoaki Seki, Ryo Fujimoto
    • Organizer
      2019 KSBB & SABRAO International Conference on Plant Breeding for Sustainable Development
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] アブラナ科におけるFLCパラログ間の発現量比について2019

    • Author(s)
      西田菜美子, アクタ アヤシャ, 板橋悦子, 宮路直実, メエラジ ハサン, 柿崎 智博, 岡崎 桂一, 藤本龍
    • Organizer
      日本育種学会第136回講演会
    • Related Report
      2019 Annual Research Report
  • [Presentation] ハクサイにおける長鎖非コードRNAとエピジェネティクスとの関係性2019

    • Author(s)
      西田菜美子, シェア ダニエル, 高橋聡史, 板橋悦子, アクタ アヤシャ, 宮路直実, メエラジ ハサン, 安田剛志, 柿崎智博, 関原明, 岡崎桂一, 藤本龍
    • Organizer
      園芸学会令和元年度秋季大会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Characterization of FLOWERING LOCUS C parlors in a late flowering line of Brassica rapa2019

    • Author(s)
      アクタアヤシャ・西田菜 美子・宮路直実・安田剛志・ 藤本龍
    • Organizer
      園芸学会令和元年度秋季大会
    • Related Report
      2019 Annual Research Report
  • [Presentation] 春化によりキャベツ由来のFLC2がハクサイの遺伝的背景でどのように機能するか2019

    • Author(s)
      西田菜美子, シェア ダニエル, 板橋悦子, 安田剛志, 柿崎智博, 岡崎桂一, 藤本龍
    • Organizer
      園芸学会令和元年度秋季大会
    • Related Report
      2019 Annual Research Report
  • [Presentation] アブラナ科野菜の難抽だい性品種育成に向けた春化研究2019

    • Author(s)
      板橋悦子
    • Organizer
      園芸学会令和元年度秋季大会シンポジウム,園芸学研究18(別2)P.48-49
    • Related Report
      2019 Annual Research Report
  • [Presentation] Distribution of histone H3 lysine 27 trimethylation in different tissues of Brassica rapa2019

    • Author(s)
      アクタ アヤシャ, 宮路 直実, 安田 剛志, 藤本 龍
    • Organizer
      園芸学会平成31年度春季大会
    • Related Report
      2018 Annual Research Report
  • [Presentation] ハクサイにおけるノンコーディングRNAの同定2019

    • Author(s)
      西田菜美子, Daniel J Shea, 板橋 悦子, Ayasha Akter, 宮路 直美, Hasan Mehraj, 柿崎 智博, 岡崎 桂一, 藤本 龍
    • Organizer
      日本育種学会第135回講演会
    • Related Report
      2018 Annual Research Report
  • [Presentation] Characterization of histone H3 lysine 27 tri-methylation in Brassica rapa L.2018

    • Author(s)
      Ryo Fujimoto, Ayasha Akter, Satoshi Takahashi, Namiko Nishida, Takashi Takasaki-Yasuda, Yutaka Suzuki, Motoaki Seki, Elizabeth S. Dennis
    • Organizer
      The 25th International Congress on Sexual Plant Reproduction
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Identification of long non-coding RNAs before and after prolonged cold treatment in Brassica rapa L.2018

    • Author(s)
      Namiko Nishida, Daniel J. Shea, Satoko Takada, Etsuko Itabashi, Takeshi Takasaki-Yasuda, Keiichi Okazaki, Elizabeth S. Dennis, Ryo Fujimoto
    • Organizer
      The 25th International Congress on Sexual Plant Reproduction
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Characterization of epigenetic states in Brassica rapa L.2018

    • Author(s)
      Ryo Fujimoto, Ayasha Akter, Satoshi Takahashi, Takeshi Takasaki-Yasuda, Yutaka Suzuki, Elizabeth S. Dennis, Motoaki Seki
    • Organizer
      Brassica 2018
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Characterization of FLOWERING LOCUS C genes in leafy Brassica rapa vegetables2018

    • Author(s)
      Ryo Fujimoto, Ayasha Akter, Namiko Nishida, Takashi Takasaki-Yasuda, Elizabeth S. Dennis
    • Organizer
      AusCanola2018
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] How Brassica oleracea FLOWERING LOCUS C 2 works in a Brassica rapa genetic background2018

    • Author(s)
      Namiko Nishida, Daniel J. Shea, Keiichi Okazaki, Ryo Fujimoto
    • Organizer
      AusCanola2018
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] キャベツにおける葉齢依存的な春化応答性のトランスクリプトーム解析2018

    • Author(s)
      板橋 悦子, シェイ・ダニエル, 吹野 伸子, 藤本 龍, 岡崎 桂一, 柿崎 智博, 小原 隆由
    • Organizer
      日本育種学会第133回講演会,育種学研究20(別2)P.212
    • Related Report
      2018 Annual Research Report
  • [Book] The Importance of Genetic and Epigenetic Research in the Brassica Vegetables in the Face of Climate Change2020

    • Author(s)
      Honghao Lv, Naomi Miyaji, Kenji Osabe, Ayasha Akter, Hasan Mehraj, Daniel J. Shea and Ryo Fujimoto
    • Publisher
      Springer
    • ISBN
      9783319974156
    • Related Report
      2019 Annual Research Report
  • [Book] Genetic and Epigenetic Regulation of Vernalization in Brassicaceae2018

    • Author(s)
      Ayasha Akter, Namiko Nishida, Satoko Takada, Etsuko Itabashi, Kenji Osabe, Daniel J Shea, Ryo Fujimoto
    • Publisher
      IntechOpen
    • ISBN
      9781789842425
    • Related Report
      2018 Annual Research Report

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Published: 2018-04-23   Modified: 2024-12-25  

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