Construction of Gene network for panicle development based on trait and expression QTL anaylisis.

• Project/Area Number: 23248002
• Research Category: Grant-in-Aid for Scientific Research (A)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Breeding science
• Research Institution: Nagoya University
• Principal Investigator: MATSUOKA Makoto 名古屋大学, 生物機能開発利用研究センター, 教授 (00270992)
• Co-Investigator(Renkei-kenkyūsha): AYA Kouichirou 名古屋大学, 高等研究院 (10594054)
• Project Period (FY): 2011-04-01 – 2014-03-31
• Project Status: Completed (Fiscal Year 2013)
• Budget Amount: ¥51,090,000 (Direct Cost: ¥39,300,000、Indirect Cost: ¥11,790,000); Fiscal Year 2013: ¥14,560,000 (Direct Cost: ¥11,200,000、Indirect Cost: ¥3,360,000); Fiscal Year 2012: ¥14,560,000 (Direct Cost: ¥11,200,000、Indirect Cost: ¥3,360,000); Fiscal Year 2011: ¥21,970,000 (Direct Cost: ¥16,900,000、Indirect Cost: ¥5,070,000)
• Keywords: 育種学 / 遺伝学 / 遺伝子 / 植物

Research Abstract

We investigated the molecular mechanism of rice panicle development by using 83 BILs crossed between an indica variety, Habataki, and Japonica, Koshihikari. For QTL analysis, we evaluated 34 traits, such as panicle number per panicle, the length of panicle, , etc (traitQTL). We also analyzed the expression level of all rice genes by microarray analysis for performing expression QTL analysis (eQTL). By the results of trait QTL, we identified 83 QTLs involved in determining the panicle structure. Farther, we suggested a validity of comparative analyses between trait-QTL and eQTL data for prediction of candidate genes of QTL. We first focused on OsCKX2/Gn1a, which is involved in increasing the secondary rachis number per panicle and already isolated by a positional cloning previously, and succeeded to predict the most feasible candidate of the Gn1a locus. Using the same method, we succeeded to predict several candidates for qPBL-6, qPBL-7 and pUPB-8.

Research Products

• [Journal Article] A Novel AP2-type Transcription Factor, SMALL ORGAN SIZE1, Controls Organ Size Downstream of an Auxin Signaling Pathway (2014)
  • Author(s): Aya, K., Hobo, T., Sato-Izawa, K., Ueguchi-Tanaka, M., Kitano, H., Matsuoka,M.
  • Journal Title: Plantand Cell Physiology Volume: (accepted)
  • NAID: 40020302118
  • URL: http://pcp.oxfordjournals.org/content/early/2014/03/03/pcp.pcu023.full.pdf+html
  • Peer Reviewed
• [Journal Article] Expression and purification of a GRAS domain of SLR1, the rice DELLAprotein (2014)
  • Author(s): Sato, T., Miyanoiri, Y., Takeda, M., Naoe, Y., Mitani, R., Hirano, K., Takehara, S., Kainosho, M., Matsuoka, M., Ueguchi-Tanaka, M., Kato, H.
  • Journal Title: Protein Expr. Purif. Volume: N/A Pages: 248-254
  • DOI: 10.1016/j.pep.2014.01.006
  • Peer Reviewed / Open Access
• [Journal Article] A Novel AP2-type Transcription Factor, SMALL ORGAN SIZE1, Controls Organ Size Downstream of an Auxin Signaling Pathway. (2014)
  • Author(s): Aya, K
  • Journal Title: Plant and Cell Physiology Volume: N/A
  • NAID: 40020302118
  • Peer Reviewed
• [Journal Article] Survey of genes involved in rice secondary cell wall formation through a co-expression network. (2013)
  • Author(s): Hirano K
  • Journal Title: Plant Cell Physiology Volume: 54 Issue: 11 Pages: 1803-1821
  • DOI: 10.1093/pcp/pct121
  • Peer Reviewed
• [Journal Article] Identification of transcription factors involved in rice secondary cell wall formation. (2013)
  • Author(s): Hirano K
  • Journal Title: Plant Cell Physiology Volume: 54 Issue: 11 Pages: 1791-1802
  • DOI: 10.1093/pcp/pct122
  • Peer Reviewed
• [Journal Article] Genes offering the potential for designing yield-related traits in rice (2013)
  • Author(s): Ikeda, M., Miura, K., Aya, K., Kitano, H., Matsuoka, M.
  • Journal Title: Cur. Opin. in Plant Biology Volume: 16, (2) Issue: 2 Pages: 213-220
  • DOI: 10.1016/j.pbi.2013.02.002
  • Peer Reviewed
• [Journal Article] ROOT GROWTH INHIBITING, a Rice Endo-1,4-β-d-Glucanase, Regulates Cell Wall Loosening and is Essential for Root Elongation (2012)
  • Author(s): Inukai, Y., Sakamoto, T., Morinaka, Y., Miwa, M., Kojima, M., Tanimoto, E., Yamamoto, H.,Sato, K., Katayama, Y., Matsuoka,M., Kitano,H.
  • Journal Title: J. Plant GrowthReg. Volume: 31, (3) Issue: 3 Pages: 373-381
  • DOI: 10.1007/s00344-011-9247-3
  • Peer Reviewed
• [Journal Article] OsGA20ox1, a candidate gene for a major QTL controlling seedling vigor in rice (2012)
  • Author(s): Abe, A., Takagi, H., Fujibe, T., Aya, K., Kojima, M., Sakakibara, H., Uemura, A., Matsuoka, M., Terauchi, R.
  • Journal Title: Theor. Appl. Genet. Volume: 125, (4) Issue: 4 Pages: 647-657
  • DOI: 10.1007/s00122-012-1857-z
  • Peer Reviewed
• [Journal Article] Efficacy of microarray profiling data combined with QTL mapping for the identification of a QTL gene controlling the initial growth rate in rice (2012)
  • Author(s): Yano, K., Takashi, T., Nagamatsu, S., Kojima, M., Sakakibara, H., Kitano, H., Matsuoka, M., Aya, K.
  • Journal Title: Plant Cell Physiol. Volume: 53, (4) Issue: 4 Pages: 729-739
  • DOI: 10.1093/pcp/pcs027
  • NAID: 10030653614
  • Peer Reviewed
• [Journal Article] ROOT GROWTH INHIBITING, a Rice Endo-1,4-β-d-Glucanase, Regulates Cell Wall Loosening and is Essential for Root Elongation. (2012)
  • Author(s): Inukai Y
  • Journal Title: Journal of Plant Growth Regulation. Volume: 31 Pages: 373-381
  • Peer Reviewed
• [Journal Article] The role of QTLs in the breeding of high-yielding rice (2011)
  • Author(s): Miura K, Ashikari M, Matsuoka M.
  • Journal Title: Trends Plant Sci. Volume: 16, (6) Issue: 6 Pages: 319-326
  • DOI: 10.1016/j.tplants.2011.02.009
  • Peer Reviewed
• [Journal Article] Artificial selection for a green revolution gene during japonica rice domestication (2011)
  • Author(s): Asano, K., Yamasaki, M., Taku, S., Miur,a K., Katagir,i S., Ito, T., Do, K., Wu, J., Ebana, K., Matsumoto, T., Innan, H., Kitano, H., Ashikari, M., Matsuoka, M.
  • Journal Title: Proc. Natl .Acad. Sci. U S A Volume: 108, (27) Issue: 27 Pages: 11034-11039
  • DOI: 10.1073/pnas.1019490108
  • Peer Reviewed
• [Journal Article] OsCAD2 is the major CAD gene responsible for monolignol biosynthesis in rice culm (2011)
  • Author(s): Hirano, K., Aya, K., Kondo, M., Okuno, A., Morinaka, Y., Matsuoka, M.
  • Journal Title: Plant Cell Rep. Volume: 31,(1) Issue: 1 Pages: 91-101
  • DOI: 10.1007/s00299-011-1142-7
  • Peer Reviewed
• [Presentation] Is there alternative receptor(s) for gibberellin in ricealeurone cells? (2014)
  • Author(s): 矢野憲司
  • Organizer: 第55回日本植物生理学会年会
  • Place of Presentation: 富山
  • Year and Date: 2014-03-18
• [Presentation] Is there alternative receptor(s) for gibberellin in rice aleurone cells? (2014)
  • Author(s): 矢野憲司
  • Organizer: 第55回日本植物生理学会年会
  • Place of Presentation: 富山県
• [Presentation] Gibberellin signaling via the GID1-DELLA perception system and its modification during the course of plant evolution (2013)
  • Author(s): Matsuoka, M.
  • Organizer: International Conference on Plant GrowthSubstances 2013
  • Place of Presentation: 上海,China
  • Year and Date: 2013-06-18
  • Invited
• [Presentation] 超多粒系統,NP-6における1穂穎花数増加に関与するQTLの集積がシンクおよびソース器官に与える影響 (2013)
  • Author(s): 池田真由子
  • Organizer: 日本育種学会第123回講演会
  • Place of Presentation: 東京
  • Year and Date: 2013-03-28
• [Presentation] Gibberellin signaling via the GID1-DELLA perception system and its modification during the course of plant evolution. The 21st Conference of the International Plant Growth Substances Association (2013)
  • Author(s): 松岡信
  • Organizer: IPGSA2013
  • Place of Presentation: 上海
  • Invited
• [Presentation] 超多粒系統，NP-6 における1 穂穎花数増加に関与するQTL の集積がシンクおよびソース器官に与える影響 (2013)
  • Author(s): 池田真由子
  • Organizer: 日本育種学会第123回講演会
  • Place of Presentation: 東京都
• [Presentation] 多収イネ、ハバタキの穂の着粒構造形成に関わるGn1およびQTLの集積系統が茎葉および収量関連形質に与える影響 (2012)
  • Author(s): 池田真由子
  • Organizer: 第20回育種学会中部地区談話会
  • Place of Presentation: 名古屋
  • Year and Date: 2012-12-08
• [Presentation] マイクロアレイとQTLマッピングを組み合わせたイネの初期成長性に関するQTLの同定 (2012)
  • Author(s): 矢野憲司
  • Organizer: 日本育種学会第121回講演会
  • Place of Presentation: 宇都宮
  • Year and Date: 2012-03-29
• [Presentation] マイクロアレイとQTLマッピングを組み合わせたイネの初期成長性に関するQTLの同定 (2012)
  • Author(s): 矢野憲司
  • Organizer: 日本育種学会第121回講演会
  • Place of Presentation: 宇都宮大学(茨城県)
  • Year and Date: 2012-03-29
• [Presentation] 多収イネ、ハバタキの穂の着粒構造形成に関わるGn1 およびQTLの集積系統が茎葉および収量関連形質に与える影響 (2012)
  • Author(s): 池田真由子
  • Organizer: 第20回育種学会中部地区談話会
  • Place of Presentation: 愛知県
• [Presentation] 長穂性イネ系統を用いた穂形質に関するQTL解析 (2011)
  • Author(s): 安藤考紀
  • Organizer: 日本育種学会第120回講演会
  • Place of Presentation: 福井
  • Year and Date: 2011-09-24
• [Presentation] 長穂性イネ系統を用いた穂形質に関するQTL解析 (2011)
  • Author(s): 安藤考紀
  • Organizer: 日本育種学会第120回講演会
  • Place of Presentation: 福井県立大学(福井県)
  • Year and Date: 2011-09-23
• [Presentation] New approach for enhancing the lodging resistance-beyond the sd1 mutation- (2011)
  • Author(s): Matsuoka M
  • Organizer: 2th GCCI 2011
  • Place of Presentation: 華中農業大学(Wuhan, CHINA)(招待講演)
  • Year and Date: 2011-07-06
• [Presentation] New approach for enhancing the lodging resistance-beyond the sd1 mutation- (2011)
  • Author(s): Matsuoka, M.
  • Organizer: The Second International Symposium on Genomics and Corp Genetic Improvement, 2th GCCI 2011
  • Place of Presentation: Wuhan, CHINA
  • Invited