Systematic analysis of transcription factors in Marchantia polymorpha

2013 Fiscal Year Final Research Report

• Project/Area Number: 24658095
• Research Category: Grant-in-Aid for Challenging Exploratory Research
• Allocation Type: Single-year Grants
• Research Field: Applied biochemistry
• Research Institution: Kyoto University
• Principal Investigator: KOHCHI Takayuki 京都大学, 生命科学研究科, 教授 (40202056)
• Co-Investigator(Renkei-kenkyūsha): ISHIZAKI Kimitsune 京都大学神戸大学, 生命科学研究科理学研究科, 助教(24 年度)准教授(25 年度) (00452293) ; NISHIHAMA Ryuichi 京都大学, 生命科学研究科, 講師 (70283455)
• Project Period (FY): 2012-04-01 – 2014-03-31
• Keywords: 転写因子 / ゼニゴケ / 陸上植物進化

Research Abstract

Transcription factors are major regulators for various biological processes including development and environmental responses. Arabidopsis thaliana and Physcomitrella patens have 2,000 and 1,200 transcription factors, respectively. The liverwort Marchantia polymorpha is an emerging model organism for developmental and evolutional studies. M. polymorpha occupies a crucial position in the evolution of land plant and has the haploid-dominant life cycle, which provides advantages over diploid plants for molecular genetic analysis. In this study, we identified ca. 300 transcription factors in M. polymorpha by searching our EST and RNA-sequence databases that include more than 20,000 genes. Surprisingly, M. polymorpha had 38 transcription factor families that are common numbers with A. thaliana. These results indicate that redundancy of transcription factors in M. polymorpha should be very low and that M. polymoroha provides suitable system for genetic analysis.

Research Products

• [Journal Article] Comparison of the MpEF1α and CaMV353. promoters for application in Marchantia polymorpha overexpression studies (2014)
  • Author(s): Althoff, F., Kopischke, S., Zobell, O., Ide,K., Ishizaki, K., Kohchi, T., and Zachgo, S.
  • Journal Title: Transgenic Res. Volume: 23 Pages: 235-244
  • DOI: 10.1007/s11248-013-9746-z
• [Journal Article] CONTINUOUS VASCULAR RING (COV1) is a trans-Golgi network localizedmembrane protein required for golgi morphology and vacuolar protein sorting (2014)
  • Author(s): Shirakawa, M., Ueda, H., Koumoto, Y., Fuji, K., Nishiyama, C., Kohchi, T.,Hara-Nishimura, I., and Shimada, T.
  • Journal Title: Plant Cell Physiol. Volume: 55 Pages: 764-772
  • DOI: 10.1093/pcp/pct195
• [Journal Article] CRISPR/Cas9 mediated targeted mutagenesis in the liverwort Marchantia polymorpha L (2014)
  • Author(s): Sugano, S. S., Shirakawa, M., Takagi, J., Matsuda, Y., Shimada, T., Hara-Nishimura, I. and Kohchi, T.
  • Journal Title: Plant Cell Physiol. Volume: 55 Pages: 475-481
  • DOI: 10.1093/pcp/pcu014
• [Journal Article] Co-option of a photoperiodic growth-phase transition system during land plant evolution (2014)
  • Author(s): Kubota, A., Kita, S., Ishizaki, K.,Nishihama, R., Yamato, K. T. and Kohchi,T.
  • Journal Title: Nature Comm. Volume: 5 Pages: 3668
  • DOI: 10.1038/ncomms4668
• [Journal Article] Efficient Agrobacterium-mediated transformation of the liverwort Marchantia polymorpha using regenerating thalli (2013)
  • Author(s): Kubota, A., Ishizaki, K., Hosaka, M., and Kohchi, T.
  • Journal Title: Biosci. Biotechnol Biochem Volume: 77 Pages: 167-172
  • DOI: 10.1271/bbb.120700
• [Journal Article] Cold-induced organelle relocation in the liverwort Marchantia polymorpha L (2013)
  • Author(s): Ogasawara, Y., Ishizaki, K., Kohchi, T.,and Kodama, Y.
  • Journal Title: Plant Cell Environ Volume: 36 Pages: 1520-1528
  • DOI: 10.1111/pce.12085
• [Journal Article] Homologous recombination-mediated gene targeting in the liverwort Marchantia polymorpha L (2013)
  • Author(s): Ishizaki, K., Johzuka-Hisatomi, Y., Ishida,S., Iida, S., and Kohchi, T.
  • Journal Title: Sci. Rep. Volume: 13 Pages: 1532
  • DOI: 10.1038/srep01532
• [Journal Article] Characterization of Four Nuclear-Encoded Plastid RNA Polymerase Sigma Factor Genes in the Liverwort Marchantia polymorpha : Blue-Light and Multiple-Stress Responsive SIG5 was Acquired Early in the Emergence of Terrestrial Plants (2013)
  • Author(s): Kanazawa, T., Ishizaki, K., Kohchi, T.,Hanaoka, M., and Tanaka, K.
  • Journal Title: Plant Cell Physiol. Volume: 54 Pages: 1736-1748
  • DOI: 10.1093/pcp/pct119
• [Journal Article] Essential role of the E3 ubiquitin ligase NOPPERABO1 in schizogenous intercellular space formation in the liverwort Marchantia polymorpha (2013)
  • Author(s): Ishizaki, K., Mizutani, M., Shimamura, M.,Masuda, A., Nishihama, R., and Kohchi, T.
  • Journal Title: Plant Cell Volume: 25 Pages: 4075-4084
  • DOI: 10.1105/tpc.113.117051
• [Journal Article] Subfunctionalization of sigma factors during the evolution of land plants based on mutant analysis of liverwort (Marchantia polymorpha L.)MpSIG1 (2013)
  • Author(s): Ueda, M., Takami, T., Peng, L., Ishizaki, K., Kohchi, T., Shikanai, T., and Nishimura, Y.
  • Journal Title: Genome Biol Evol. Volume: 5 Pages: 1836-1848
  • DOI: 10.1093/gbe/evt137
• [Journal Article] Visualization of auxin-mediated transcriptional activation using a common auxin-responsive reporter system in the liverwort Marchantia polymorpha (2012)
  • Author(s): Ishizaki, K., Nonomura, M., Kato, H.,Yamato, K. T., and Kohchi, T.
  • Journal Title: J. Plant Res Volume: 125 Pages: 643-651
  • DOI: 10.1007/s10265-012-0477-7
• [Journal Article] Characterization of the plasma membrane H_+-ATPase in the liverwort Marchantia polymorpha (2012)
  • Author(s): Okumura, M., Inoue, S. I., Takahashi, K., Ishizaki, K., Kohchi, T., Kinoshita, T.
  • Journal Title: Plant Physiol Volume: 159 Pages: 826-834
  • DOI: 10.1104/pp.112.195537
• [Journal Article] Composition and physiological function of the chloroplast NADH dehydrogenase-like complex in Marchantia polymorpha (2012)
  • Author(s): Ueda, M., Kuniyoshi, T., Yamamoto, H.,Sugimoto K., Ishizaki, K., Kohchi, T.,Nishimura, Y., and Shikanai, T.
  • Journal Title: Plant J. Volume: 72 Pages: 683-693
  • DOI: 10.1111/j.1365-313X.2012.05115.x
• [Presentation] 苔類ゼニゴケにおける転写因子レパートリー (2014)
  • Author(s): 白川一、井上佳祐、石崎公庸、西浜竜一、河内孝之
  • Organizer: 55回 日本植物生理学会年会
  • Place of Presentation: 富山大学
  • Year and Date: 20140318-20
• [Presentation] 苔類ゼニゴケにおける光依存的な細胞分裂活性制御機構 (2013)
  • Author(s): 西浜竜一、石崎公庸、河内孝之
  • Organizer: 第77回日本植物学会大会
  • Place of Presentation: 北海道大学
  • Year and Date: 20130913-15
  • Invited
• [Presentation] ゼニゴケから探るオーキシン応答の基本メカニズムとその進化 (2013)
  • Author(s): 石崎公庸、加藤大貴、河内孝之
  • Organizer: 第54回日本植物生理学会年会
  • Place of Presentation: 岡山大学
  • Year and Date: 20130321-23
  • Invited
• [Presentation] ゼニゴケ研究地平への投射 : オーキシン信号伝達を例に (0)
  • Author(s): 河内孝之、加藤大貴、西浜竜一、大和勝幸、石崎公庸
  • Organizer: 55回 日本植物生理学会年会
  • Place of Presentation: 富山大学S11-5
  • Year and Date: 00000319
  • Invited
• [Book] Plastid transformation of sporelings and suspension-cultured cells from the liverwort Marchantia polymorpha L., Method Mol.Biol. (2014)
  • Author(s): Chiyoda, S., Yamato, K. T., Kohchi,T.
  • Total Pages: 1132:439-447
• [Remarks]
  • URL: http://www.lif.kyoto-u.ac.jp/labs/plantmb