Genetics and epigenetics in higher plants

2008 Fiscal Year Final Research Report

• Project/Area Number: 17207002
• Research Category: Grant-in-Aid for Scientific Research (A)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Genetics/Genome dynamics
• Research Institution: National Institute for Basic Biology
• Principal Investigator: IIDA Shigeru National Institute for Basic Biology, 分子遺伝学研究部門, 教授 (30012777)
• Co-Investigator(Kenkyū-buntansha): TERADA Rie 基礎生物学研究所, 分子遺伝学研究部門, 助教 (30137799) ; HOSHINO Atsushi 基礎生物学研究所, 分子遺伝学研究部門, 助教 (80312205) ; TSUGANE Kazuo 基礎生物学研究所, 分子遺伝学研究部門, 助教 (50343744)
• Project Period (FY): 2005 – 2008
• Keywords: 遺伝学 / 遺伝子 / バイオテクノロジー / ゲノム / 植物

Research Abstract

江戸時代に我国で花卉園芸化されて多数の花の色や形態に関する自然突然変異体が分離され、戦前に世界をリードし、我国の文化遺産でもあるアサガオの古典遺伝学的成果の内で、花の色や模様に的を絞り、分子遺伝学的観点から変異の実態を解明し、ジェネティク及びエピジェネティクな発現制御機構の解明を行なった。また、ゲノム配列が解析されてモデル植物となったイネを用いて、我々が独自に開発した変異創成法である相同組換えによる遺伝子ターゲティング法による変異体作出と自然条件下で転移を制御できるDNA型トランスポゾンの転移制御機構の解析も行なった。

Research Products

• [Journal Article] Characterization of autonomous Dart1 transposons belonging to the hAT superfamily in rice. (2008)
  • Author(s): Z. Shimatani, K. Takagi, C.H. Eun, M. Maekawa, H. Takahara, A. Hoshino, Q. Qian, R. Terada, Y. Johzuka-Hisatomi, S. lida and K. Tsugane
  • Journal Title: Mol. Gen. Genomics 281 Pages: 329-344
  • Peer Reviewed
• [Journal Article] Identification of r mutations conferring white flowers in the Japanese morning glory (2008)
  • Author(s): A. Hoshino, K.I. Park and S. lida
  • Journal Title: Ipomoea nil. J. Plant Res. 122 Pages: 15-222
  • Peer Reviewed
• [Journal Article] Efficient transfer of base changes from a vector to the rice genome by homologous recombination : involvement of heteroduplex formation and mismatch correction. (2008)
  • Author(s): Y. Johzuka-Hisatomi, R. Terada and S. lida
  • Journal Title: Nucleic Acids Res. 36 Pages: 4727-4735
  • Peer Reviewed
• [Journal Article] Alternative splicing of the rice OsMET1 genes encoding maintenance DNA methyltransferase. (2008)
  • Author(s): T. Yamauchi, S. Moritoh, Y. Johzuka-Hisatomi, A. Ono, R. Terada, I. Nakamura and S. lida
  • Journal Title: J. Plant Physiol 165 Pages: 1774-1782
  • Peer Reviewed
• [Journal Article] The gravity-regulated growth of axillary buds is mediated by a mechanism different from decapitation-induced release. (2008)
  • Author(s): D. Kitazawa, Y. Miyazawa, N. Fujii, A. Hoshino, S. lida, E. Nitasaka and H. Takahashi
  • Journal Title: Plant Cell Physiol 49 Pages: 891-900
  • Peer Reviewed
• [Journal Article] Distribution and mapping of an active autonomous aDart element responsible for mobilizing nonautonomous nDart1 transposons in cultivated rice varieties. (2008)
  • Author(s): H. Nishimura, N. Ahmed, K. Tsugane, S. lida, and M. Maekawa
  • Journal Title: Theor. Appl. Genet. 116 Pages: 395-405
  • Peer Reviewed
• [Journal Article] Gene targeting by homologous recombination as a biotechnological tool for rice functional genomics. (2007)
  • Author(s): R. Terada, Y. Johzuka-Hisatomi, M. Saitoh, H. Asao, and S. lida
  • Journal Title: Plant Physiol 144 Pages: 846-856
  • Peer Reviewed
• [Journal Article] Transposon display for active DNA transposons in rice. (2007)
  • Author(s): K. Takagi, N. lshikawa, M. Maekawa, K. Tsugane, and S. lida
  • Journal Title: Genes Genet. Syst. 82 Pages: 109-122
  • Peer Reviewed
• [Journal Article] Spontaneous mutations caused by an active Helitron transposon, Hel-It1, in morning glory, Ipomoea tricolor. (2007)
  • Author(s): J.D. Choi, A. Hoshino, K.I. Park, I.S. Park, and S. lida
  • Journal Title: Plant J. 49 Pages: 924-934
  • Peer Reviewed
• [Journal Article] A bHLH regulatory gene in the common morning glory, Ipomoea purpurea, controls anthocyanin biosynthesis in flowers, proanthocyanidin and phytomelanin pigmentation in seeds, and seed trichome formation. (2007)
  • Author(s): K.I. Park, N. lshikawa, Y. Morita, J.D. Choi, A. Hoshino, and S. lida
  • Journal Title: Plant J. 49 Pages: 641-659
  • Peer Reviewed
• [Journal Article] The Rc and Rd genes are involved in proanthocyanidin synthesis in the rice pericarp. (2007)
  • Author(s): T. Furukawa, M. Maekawa, T. Oki, I. Suda, S. lida, H. Shimada, I. Takamure and K. Kadowaki
  • Journal Title: Plant J. 49 Pages: 91-102
  • Peer Reviewed
• [Journal Article] An active DNA transposon nDart causing leaf variegation and mutable dwarfism and its related elements in rice. (2006)
  • Author(s): K. Tsugane, M. Maekawa, K. Takagi, H. Takahara, Q, Qian, C.H, Eun, and S. lida
  • Journal Title: Plant J. 45 Pages: 46-57
  • Peer Reviewed
• [Journal Article] Isolation of cDNAs for R2R3-MYB, bHLH, and WDR transcriptional regulators and identification of c and ca mutations conferring white flowers in the Japanese morning glory. (2006)
  • Author(s): Y. Morita, M. Saitoh, A. Hoshino, E. Nitasaka, and S. lida
  • Journal Title: Plant Cell Physiol. 47 Pages: 457-470
  • Peer Reviewed
• [Journal Article] Modification of endogenous natural genes by gene targeting in rice and other higher plants. (2005)
  • Author(s): S. lida, and R. Terada
  • Journal Title: Plant Mol. Biol. 59 Pages: 205-219
  • Peer Reviewed
• [Journal Article] Molecular mapping of a fertility restorer gene for Owen cytoplasmic male sterility in sugar beet. (2005)
  • Author(s): E. Hagihara, N. Itchoda, Y. Habu, S. lida, T. Mikami, and T. Kubo
  • Journal Title: Theor. Appl. Genet. 111 Pages: 250-255
  • Peer Reviewed
• [Journal Article] Japanese morning glory dusky mutants displaying reddish-brown or purplish-grey flowers are deficient in a novel glycosylation enzyme for anthocyanin biosynthesis, UDP-glucose :anthocyan id in 3-O-glucoside-2"-O- glucosyltransferase, due to 4-bp insertions in the gene. (2005)
  • Author(s): Y. Morita, A. Hoshino, Y. Kikuchi, H. Okuhara, E. Ono, Y. Tanaka, Y. Fukui, N. Saito, E. Nitasaka, H. Noguchi, and S. lida
  • Journal Title: Plant J. 42 Pages: 353-363
  • Peer Reviewed
• [Journal Article] Characterization of a novel Na+/H+ antiporter gene InNHX2 and comparison of InNHX2 with InNHX1, which is responsible for blue flower coloration by increasing the vacuolar pH in the Japanese morning glory. (2005)
  • Author(s): M. Ohnishi, S. Fukada-Tanaka, A. Hoshino, J. Takada, Y. Inagaki, and S. lida
  • Journal Title: Plant Cell Physiol. 46 Pages: 259-267
  • Peer Reviewed
• [Journal Article] Acylated peonidin glycosides from duskish mutant flowers of Ipomoea nil. (2005)
  • Author(s): N. Saito, K. Toki, Y. Morita, A. Hoshino, S. lida, A. Shigihara, and T. Honda
  • Journal Title: Phytochemistry 66 Pages: 1852-1860
  • Peer Reviewed
• [Journal Article] Shoot circumnutation and winding movements require gravisensing cells. (2005)
  • Author(s): D. Kitazawa, Y. Hatakeda, M. Kamada, N. Fujii, Y. Miyazawa, A. Hoshino, S. lida, H. Fukaki, M. T. Morita, M. Tasaka, H. Suge, and H. Takahashi
  • Journal Title: Proc. Natl. Acad. Sci. USA 102 Pages: 18742-18747
  • Peer Reviewed
• [Presentation] Efficient Transfer of Base Changes From a Vector to the Genome by Homologous Recombination in Rice Gene Targeting : Involvement of Heteroduplex Formation and Mismatch Correction. (2008)
  • Author(s): Johzuka-Hisatomi, Y. and lida, S.
  • Organizer: 55th NIBB Conference, Frontiers of Plant Science in the 21st Century.
  • Place of Presentation: Okazaki, Japan
  • Year and Date: 20080913-15
• [Presentation] Targeted Disruption of the OsDRMla Gene, a Rice Homolog of DOMAINS REARRANGED METHYLTRANSFERASE, by Homologous Recombination. (2008)
  • Author(s): Moritoh, S., Terada, R., Johzuka-Hisatomi, Y., Eun, C., Yamaguchi, K., Ono, A. and lida, S.
  • Organizer: 55th NIBB Conference, Frontiers of Plant Science in the 21st Century.
  • Place of Presentation: Okazaki, Japan
  • Year and Date: 20080913-15
• [Presentation] Epigenetic Regulation of Transposition Activity of the Dart DNA Transposon System in Rice. (2008)
  • Author(s): Tsugane, K., Maekawa, M., Eun, C., Takagi, K., Nishimura, H., Shimatani, Z., Hayashi, M. and lida, S.
  • Organizer: 55th NIBB Conference, Frontiers of Plant Science in the 21st Century.
  • Place of Presentation: Okazaki, Japan
  • Year and Date: 20080913-15
• [Presentation] Epigenetic regulation of flower pigmentation in the morning glory. (2008)
  • Author(s): Hoshino, A., Choi, J.D., Park, K.I. and lids, S.
  • Organizer: The 55th NIBB Conference and Arabidopsis Workshop 2008, Frontiers of Plant Science in the 21st Century.
  • Place of Presentation: Okazaki, Japan
  • Year and Date: 20080913-15
• [Presentation] Epigenetic regulation of flower pigmentation in the morning glory. (2008)
  • Author(s): Hoshino, A., Choi, J.D., Park, K.I. and lids, S.
  • Organizer: 6th NIBB-EMBL Joint Meeting : Evolution of epigenetic regulation.
  • Place of Presentation: Heidelberg, Germany
  • Year and Date: 20080317-19
• [Presentation] Epigenetic gene regulation in the Japanese morning glory and rice. (2008)
  • Author(s): lida, S., Morita, Y., Johzuka-Hisatomi, Y., Yamauchi, T. and Moritoh, S.
  • Organizer: 6th NIBB-EMBL Joint Meeting : Evolution of epigenetic regulation.
  • Place of Presentation: Heidelberg, Germany
  • Year and Date: 20080317-19
• [Presentation] Endogenous DNA transposon, nDart-tagging system in rice. (2007)
  • Author(s): Maekawa, M., Tsugane, K. and lida, S.
  • Organizer: Workshop on Development Genetics and Molecular Breeding in Rice.
  • Place of Presentation: Hongzhou, China
  • Year and Date: 20071117-19
• [Presentation] Flower coloration and vacuolar alkalization in the Japanese morning glory. (2007)
  • Author(s): Hoshino, A., Fukada-Tanaka, S., Inagaki, Y., Yamaguchi, T., Ohnishi, M. and lida, S.
  • Organizer: 9th World Petunia Days.
  • Place of Presentation: Amsterdam, The Netherlands
  • Year and Date: 20071028-31
• [Presentation] Gene targeting by homologus recombination as a biotechnological tool for rice functional genomics. (2007)
  • Author(s): Johzuka-Hisatomi, Y., Terada, R., Nakazono, M. and lida, S.
  • Organizer: 5th International Symposium of Rice Functional Genomics.
  • Place of Presentation: Tsukuba, Japan
  • Year and Date: 20071015-17
• [Presentation] Gene targeting by homologous recombination in rice. (2007)
  • Author(s): Terada, R., Johzuka-Hisatomi, Y., Yamauchi, T. and lida S.
  • Organizer: 1st EMBO Workshop on Plant DNA Repair and Recombination.
  • Place of Presentation: Presquile de Giens, France
  • Year and Date: 20070531-0603
• [Presentation] Potent nDart-mediated gene tagging system in rice. (2007)
  • Author(s): Maekawa, M., Tsugane, K. and lida S.
  • Organizer: International Symposium on Rice Mutants, Functional Genomics and Bio-technology Breeding.
  • Place of Presentation: Hongzhou, China
  • Year and Date: 20070329-0401
• [Presentation] Gene tagging by activating DNA transposon nDart in indica rice. (2007)
  • Author(s): Ahmed, N., Maekawa, M., Takahara, H., Takagi, K., Tsuqane, K. and lida S.
  • Organizer: 2nd International Conference of Plant Molecular Breeding.
  • Place of Presentation: Sanya, China
  • Year and Date: 20070323-27
• [Presentation] Epigenetic regulation of an active DNA transposon nDart under natural growth condition, and its application for gene tagging in rice. (2007)
  • Author(s): Tsugane, K., Maekawa, M., Takagi, K., Eun, C. and lida S.
  • Organizer: The sixth Cold Spring Harbor winter conference PLANT GENOMES.
  • Place of Presentation: Cold Spring Harbor, USA
  • Year and Date: 20070315-20
• [Presentation] Generation of rice DDM1 knock-out mutants by homologous recombination-promoted gene targeting. (2007)
  • Author(s): Terada, R., Johzuka-Hisatomi, Y. and lida S.
  • Organizer: UCR's 24th Symposium in Plant Biology "Gene silencing : the biology of small RNAs and the epigenome".
  • Place of Presentation: Riverside, USA
  • Year and Date: 20070118-20
• [Presentation] Post-transcriptional gene silencing is involved in the formation of characteristic pigmentation patterns in flowers of the Japanese morning glory. (2007)
  • Author(s): Morita, Y., Hoshino, A. and lida S.
  • Organizer: 24th Symposium in Plant Biology, Riverside.
  • Place of Presentation: Riverside, USA
  • Year and Date: 20070118-20
• [Presentation] Identification of an active DNA transposon nDart under natural growth condition, and its application for gene tagging in rice. (2006)
  • Author(s): Tsugane, K., Maekawa, M., Takagi, K., Eun, C. and lida, S.
  • Organizer: The 5th Plant Genomics European Meeting
  • Place of Presentation: Venice, Italy
  • Year and Date: 20061011-14
• [Presentation] Gene targeting by homologous recombination in rice. (2006)
  • Author(s): Terada, R., Johzuka-Hisatomi, Y., Saitoh, M. and lid S.
  • Organizer: The 8th International Congress of Plant Molecular Biology.
  • Place of Presentation: Adelaide, Australia
  • Year and Date: 20060820-25
• [Presentation] Flower pigmentation patterns and gene silencing in the Japanese morning glory. (2006)
  • Author(s): Hoshino, A., Morita, Y., Park, K.I., Ohnishi, M. and lida, S.
  • Organizer: 2006 Keystone Symposia, RNAi and Related Pathways.
  • Place of Presentation: British Columbia, Canada
  • Year and Date: 20060126-31
• [Presentation] A transposon display for nonautonomous DNA-based active rice transposons, nDarts. (2005)
  • Author(s): Takagi, K., Maekawa, M., Tsugane, K. and lida, S.
  • Organizer: 5th International Rice Genetics Symposium and 3rd International Rice Functional Genomics Symposium.
  • Place of Presentation: Manila, Philippines
  • Year and Date: 20051119-23
• [Presentation] Nonautonomous DNA-based active rice transposons nDarts and their application to gene tagging. (2005)
  • Author(s): Maekawa, M., Takahara, H., Qian, Q., Tsugane, K. and lida, S.
  • Organizer: 5th International Rice Genetics Symposiumand 3rd International Rice Functional Genomics Symposium.
  • Place of Presentation: Manila, Philippines
  • Year and Date: 20051119-23
• [Presentation] The modification of endogenous genes by homologous recombination in rice. (2005)
  • Author(s): lida, S., Johzuka-Hisatomi, Y., Saitoh, M. and Terada, R.
  • Organizer: 5th International Rice Genetics Symposium 3rd International Rice Functional Genomics Symposium.
  • Place of Presentation: Manila, Philippines
  • Year and Date: 20051119-23
• [Book] Homologous recombination-dependent gene targeting and an active DNA transposon nDart-promoted gene tagging for rice functional genomics.(H. Hirano, A. Hirai, Y. Sano, and T. Sasaki eds., Rice Biology in the Genomic Era)(81-94) (2008)
  • Author(s): Y. Johzuka-Hisatomi, M. Maekawa, K. Takagi, C.H. Eun, T. Yamauchi, Z. Shimatani, N. Ahmed, H. Urawa, K. Tsuciane, R. Terada and S. lida
  • Publisher: Biotechnology in Agriculture and Forestry
• [Book] Gene targeting by homologous recombination for rice functional genomics.(N.M. Upadhyaya ed. Rice Functional enomics-Challenges, Progress and Prospects)(pp.273-289) (2007)
  • Author(s): S. lida, Y. Johzuka-Hisatomi and R. Terada
  • Publisher: Springer, Berlin, Heidelberg, New York
• [Book] Flavonoid pigments as tools in molecular genetics(E. Glotewold ed. The Science of Flavonoids)(pp.147-173) (2006)
  • Author(s): S. Chopra, A. Hoshino, J. Boddu, and S. lida
  • Publisher: Springer, Berlin, Heidelberg, New York