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2004 Fiscal Year Final Research Report Summary

Comparative genomic studies on the evolution of cyanobacteria and plastids

Research Project

Project/Area Number 15370017
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field 植物生理・分子
Research InstitutionThe University of Tokyo (2004)
Saitama University (2003)

Principal Investigator

SATO Naoki  The University of Tokyo, Graduate School of Arts and Science, Professor, 大学院・総合文化研究科, 教授 (40154075)

Project Period (FY) 2003 – 2004
KeywordsPhotosynthesis / Comparative genomics / Genome evolution / DNA polymerase / Visualization of nucleoids
Research Abstract

The aim of this study is to analyze the evolution of cyanobacterial endosymbiont to plastids using comparative genomic data based on prokaryotic and eukaryotic organisms. We identified some key components of the genomic machinery of plastids, and performed functional analysis of the components. Major results were the followings :
1.We developed a new version (3.5) of the GCLUST software, which clusters predicted proteins of prokaryotic and eukaryotic organisms. This increased performance of clustering of large-scale genomic data.
2.The 40 cyanobacterial genes that are included in the 37 clusters of functionally unknown genes, which are conserved in photosynthetic organisms, were disrupted. Fluorescence induction kinetic analysis indicated that many of them were affected in photosystems. Most of the Arabidopsis genes in the 37 gene clusters were light-induced, and the protein product of these genes were targeted to plastids. In addition, tag-lines that are disrupted in the genes in 20 of the clusters were analyzed. Three lines that showed visible phenotypes were found. There results demonstrate that the computationally extracted 37 gene clusters encode, in fact, plastid proteins of endosymbiont origin, which are novel factors involved in photosynthesis.
3.Two DNA polymerases that are localized in the organelles of the unicellular red alga, Cyanidioschyzon merolae.
4.Sulfite reductases in cyanobacteria, red alga, and green plants were analyzed with respect to DNA-binding activity and intracellular localization.
5.A new technique was developed to visualize plastid nucleoids within live plant materials. Dynamism of plastid nucleoids in non-photosynthetic cells is now clearly demonstrated. During the division of plastid, nucleoids formed a network structure, which permitted even partition of nucleoids to daughter plastids.

  • Research Products

    (28 results)

All 2005 2004 2003

All Journal Article (27 results) Book (1 results)

  • [Journal Article] Characterization of RNA-binding properties of three types of RNA-binding proteins in Anabaena sp. PCC 71202005

    • Author(s)
      T.Hamano他8名
    • Journal Title

      Cell.Mol.Biol. 50

      Pages: 613-624

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Visualization of plastid nucleoids in situ using the PEND-GFP fusion protein2005

    • Author(s)
      K.Terasawa, N.Sato
    • Journal Title

      Plant Cell Physiol. 45

      Pages: 640-660

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Occurrence and characterization of PEND proteins in angiosperms2005

    • Author(s)
      K.Terasawa, N.Sato
    • Journal Title

      J.Plant Res. (印刷中)

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Unique translation initiation at the second AUG codon determines mitochondrial localization of the phage-type RNA polymerases in the moss Physcomitrella patens2005

    • Author(s)
      Y.Kabeya, N.Sato
    • Journal Title

      Plant Physiol. 138

      Pages: 369-382

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Visualization of plastid nucleoids in situ using the PEND-GFP fusion protein2005

    • Author(s)
      K.Terasawa, N.Sato
    • Journal Title

      Plant Cell Physiol. 46

      Pages: 649-660

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Occurrence and characterization of PEND proteins in angiosperms2005

    • Author(s)
      K.Terasawa, N.Sato
    • Journal Title

      J.Plant Res. (in press)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] ゲノム情報と光合成生物の初期進化2004

    • Author(s)
      佐藤直樹
    • Journal Title

      学術月報 57

      Pages: 1039-1043

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Plastid replication in Arabidopsis : Complexity of the molecular components for the control of division2004

    • Author(s)
      M.T.Fujiwara, N.Sato
    • Journal Title

      Recent Res.Devel.Plant Sci. 2

      Pages: 219-248

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Cloning and characterization of glycine-rich RNA-binding protein cDNAs in the moss Physcomitrella patens.2004

    • Author(s)
      T.Nomata, Y.Kabeya, N.Sato
    • Journal Title

      Plant Cell Physiol. 44

      Pages: 48-56

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Genome sequence of the ultrasmall unicellular red alga Cyanidioschyzon merolae 10D.2004

    • Author(s)
      Matsuzaki, M.他41名
    • Journal Title

      Nature 428

      Pages: 653-657

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Use of segment-based microarray in the analysis of global gene expression in response to various environmental stresses in the cyanobacterium Anabaena sp. PCC 71202004

    • Author(s)
      Sato, N.他18名
    • Journal Title

      J.Gen.Appl.Microbiol. 50

      Pages: 1-8

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Discontinuous evolution of plastid genomic machinery : Radical replacement of major DNA-binding proteins.2004

    • Author(s)
      Sato, N.他5名
    • Journal Title

      Endocytobiosis Cell Res. 15

      Pages: 286-293

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Early evolution of photosynthetic organisms in the light of genome informatics.2004

    • Author(s)
      N.Sato
    • Journal Title

      Japanese Scientific Monthly (in Japanese) 57

      Pages: 1039-1043

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Plastid replication in Arabidopsis : Complexity of the molecular components for the control of division.2004

    • Author(s)
      M.T.Fujiwara, N.Sato
    • Journal Title

      Recent Res.Devel.Plant Sci. (ISBN : 81-7736-239-9) 2

      Pages: 219-248

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Genome sequence of the ultrasmall unicellular red alga Cyanidioschyzon merolae 10D.2004

    • Author(s)
      Matsuzaki, M., Misumi, O., Shin-i, T., Maruyama, S., Takahara, M., Miyagishima, S., Mori, T., Nishida, K., Yagisawa, F., Nishida, K., Yoshida, Y., Nishimura, Y., Nakao, S., Kobayashi, T., Momoyama, Y., Higashiyama, T., Minoda, A., Sano, M., Nomoto, H., Oishi, K., Hayashi, H., Ohta, F., Nishizaka, S., Haga, S., Miura, S., Morishita, T., Kabeya, Y., Terasawa, K., Suzuki, Y., Ishii, Y., Asakawa, S., Takano, H., Ohta, N., Kuroiwa, H., Tanaka, K., Shimizu, N., Sugano, S., Sato, N., Nozaki, H., Ogasawara, N., Kohara, Y., Kuroiwa, T.
    • Journal Title

      Nature 428

      Pages: 653-657

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Use of segment-based microarray in the analysis of global gene expression in response to various environmental stresses in the cyanobacterium Anabaena sp.PCC 71202004

    • Author(s)
      Sato, N., Ohmori, M., Ikeuchi, M., Tashiro, K., walk, C.P., Kaneko, T., Okada, K., Tsuzuki, M., Ehira, S., Katoh, H., Okamoto, S., Yoshimura, H., Fujisawa, T., Kamei, A., Yoshihara, S., Narikawa, R., Hamano, T., Tabata, S., Kuhara, S.
    • Journal Title

      J.Gen.Appl.Microbiol. 50

      Pages: 1-8

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Discontinuous evolution of plastid genomic machinery : Radical replacement of major DNA-binding proteins.2004

    • Author(s)
      Sato, N., Sekine, K., Kabeya, Y., Ehira, S., Onuma, M., Ohta, N.
    • Journal Title

      Endocytobiosis Cell Res. 15

      Pages: 286-293

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Evolution of organellar transcription machinery in bryophytes and vascular plants.2004

    • Author(s)
      Kabeya, Y., Sato, N.
    • Journal Title

      Plant Genome.Biodiversity and Evolution Enfield (NH) USA (Sharma, A.K., Sharma, A., Eds.) (Science Publishers, Inc.) Volume 2, Part A Lower Groups

      Pages: 263-283

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Characterization of RNA-binding properties of three types of RNA-binding proteins in Anabaena sp.PCC 71202004

    • Author(s)
      T.Hamano, S.Murakami, K.Takayama, S.Ehira, K.Maruyama, H.Kawakami, E.H.Marita, H.Hayashi, N.Sato
    • Journal Title

      Cell.Mol.Biol. 50

      Pages: 613-624

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Gclust : genome-wide clustering of protein sequences for identification of photosynthesis-related genes resulting from massive horizontal gene transfer.2003

    • Author(s)
      N.Sato
    • Journal Title

      Genome Inform. 14

      Pages: 585-586

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] GenoMap, a circular genome data viewer.2003

    • Author(s)
      N.Sato, S.Ehira
    • Journal Title

      Bioinformatics 19

      Pages: 1583-1584

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Genome-wide expression analysis of the responses to nitrogen deprivation in the heterocyst-forming cyanobacterium Anabaena sp. strain PCC 71202003

    • Author(s)
      S.Ehira, M.Ohmori, N.Sato
    • Journal Title

      DNA Research 10

      Pages: 97-113

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Conserved temperature-dependent expression of RNA-binding proteins in cyanobacteria with different temperature optima2003

    • Author(s)
      S.Ehira他8名
    • Journal Title

      FEMS Microbiol.Lett 225

      Pages: 137-142

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Organization, developmental dynamics and evolution of the plastid nucleoid.2003

    • Author(s)
      N.Sato, K.Terasawa, K.Miyajima, Y.Kabeya
    • Journal Title

      Int.Rev.Cytol. 232

      Pages: 217-262

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] GenoMap, a circular genome data viewer.2003

    • Author(s)
      N.Sato, S.Ehira
    • Journal Title

      Blainformatics 19

      Pages: 1583-1584

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Genome-wide expression analysis of the responses to nitrogen deprivation in the heterocyst-forming cyanobacterium Anabaena sp.strain PCC 71202003

    • Author(s)
      S.Ehira, M.Ohmori, N.Sato
    • Journal Title

      DNA Research 10

      Pages: 97-113

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Conserved temperature-dependent expression of RNA-binding proteins in cyanobacteria with different temperature optima2003

    • Author(s)
      S.Ehira, T.Hamano, T.Hayashida, K.Kojima, H.Nakamoto, T.Hiyama, M.Ohmori, S.Shivaji, N.Sato
    • Journal Title

      FEMS Microbiol.Lett. 225

      Pages: 137-142

    • Description
      「研究成果報告書概要(欧文)」より
  • [Book] Plant Genome. Biodiversity and Evolution" Volume 2, Part A Lower Groups (Sharma, A.K. and Sharma, A., Eds.) pp. 263-2832004

    • Author(s)
      Kabeya, Y., Sato, N.
    • Total Pages
      317
    • Publisher
      Science Publishers, Inc., Enfield (NH) USA.
    • Description
      「研究成果報告書概要(和文)」より

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Published: 2006-07-11  

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