Complete Genome Sequence of <i>Bradyrhizobium</i> sp. S23321: Insights into Symbiosis Evolution in Soil Oligotrophs

DOI Web Site Web Site PubMed 15 Citations 72 References Open Access
  • Okubo Takashi
    Graduate School of Life Sciences, Tohoku University Graduate School of Life Sciences, Tohoku University
  • Tsukui Takahiro
    Graduate School of Life Sciences, Tohoku University Graduate School of Life Sciences, Tohoku University
  • Maita Hiroko
    Graduate School of Life Sciences, Tohoku University Laboratory for Plant Genome Informatics, Kazusa DNA Research Institute Graduate School of Life Sciences, Tohoku University Laboratory for Plant Genome Informatics, Kazusa DNA Research Institute
  • Okamoto Shinobu
    Database Center for Life Science (DBCLS), Research Organization of Information and Systems (ROIS) Database Center for Life Science (DBCLS), Research Organization of Information and Systems (ROIS)
  • Oshima Kenshiro
    Graduate School of Frontier Sciences, University of Tokyo Graduate School of Frontier Sciences, University of Tokyo
  • Fujisawa Takatomo
    Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems
  • Saito Akihiro
    Department of Material and Life Science, Faculty of Science and Technology, Shizuoka Institute of Science and Technology Department of Material and Life Science, Faculty of Science and Technology, Shizuoka Institute of Science and Technology
  • Futamata Hiroyuki
    Department of Material Science and Chemical Engineering, Shizuoka University Department of Material Science and Chemical Engineering, Shizuoka University
  • Hattori Reiko
    Attic Lab Attic Lab
  • Shimomura Yumi
    National Institute for Agro-Environmental Sciences National Institute for Agro-Environmental Sciences
  • Haruta Shin
    Graduate School of Science and Engineering, Tokyo Metropolitan University Graduate School of Science and Engineering, Tokyo Metropolitan University
  • Morimoto Sho
    National Institute for Agro-Environmental Sciences National Institute for Agro-Environmental Sciences
  • Wang Yong
    National Institute for Agro-Environmental Sciences National Institute for Agro-Environmental Sciences
  • Sakai Yoriko
    National Institute for Agro-Environmental Sciences National Institute for Agro-Environmental Sciences
  • Hattori Masahira
    Graduate School of Frontier Sciences, University of Tokyo Graduate School of Frontier Sciences, University of Tokyo
  • Aizawa Shin-ichi
    Department of Life Sciences, Prefectural University of Hiroshima Department of Life Sciences, Prefectural University of Hiroshima
  • Nagashima Kenji V. P.
    Graduate School of Science and Engineering, Tokyo Metropolitan University Graduate School of Science and Engineering, Tokyo Metropolitan University
  • Masuda Sachiko
    Graduate School of Life Sciences, Tohoku University Graduate School of Life Sciences, Tohoku University
  • Hattori Tsutomu
    Attic Lab Attic Lab
  • Yamashita Akifumi
    Graduate School of Life Sciences, Tohoku University Graduate School of Life Sciences, Tohoku University
  • Bao Zhihua
    Graduate School of Life Sciences, Tohoku University Graduate School of Life Sciences, Tohoku University
  • Hayatsu Masahito
    National Institute for Agro-Environmental Sciences National Institute for Agro-Environmental Sciences
  • Kajiya-Kanegae Hiromi
    Database Center for Life Science (DBCLS), Research Organization of Information and Systems (ROIS) Database Center for Life Science (DBCLS), Research Organization of Information and Systems (ROIS)
  • Yoshinaga Ikuo
    Graduate School of Agriculture, Kyoto University Graduate School of Agriculture, Kyoto University
  • Sakamoto Kazunori
    Graduate School of Horticulture, Chiba University Graduate School of Horticulture, Chiba University
  • Toyota Koki
    Tokyo University of Agriculture and Technology Tokyo University of Agriculture and Technology
  • Nakao Mitsuteru
    Database Center for Life Science (DBCLS), Research Organization of Information and Systems (ROIS) Database Center for Life Science (DBCLS), Research Organization of Information and Systems (ROIS)
  • Kohara Mitsuyo
    Laboratory for Plant Genome Informatics, Kazusa DNA Research Institute Laboratory for Plant Genome Informatics, Kazusa DNA Research Institute
  • Anda Mizue
    Graduate School of Life Sciences, Tohoku University Graduate School of Life Sciences, Tohoku University
  • Niwa Rieko
    National Institute for Agro-Environmental Sciences National Institute for Agro-Environmental Sciences
  • Jung-Hwan Park
    Graduate School of Agriculture, Kyoto University Graduate School of Agriculture, Kyoto University
  • Sameshima-Saito Reiko
    Faculty of Agriculture, Shizuoka University Faculty of Agriculture, Shizuoka University
  • Tokuda Shin-ichi
    National Institute of Vegetable and Tea Sciences, National Agriculture and Food Research Organization National Institute of Vegetable and Tea Sciences, National Agriculture and Food Research Organization
  • Yamamoto Sumiko
    Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems
  • Yamamoto Syuji
    Department of Material Science and Chemical Engineering, Shizuoka University Department of Material Science and Chemical Engineering, Shizuoka University
  • Yokoyama Tadashi
    Institute of Agriculture, Tokyo university of Agriculture and Technology Institute of Agriculture, Tokyo university of Agriculture and Technology
  • Akutsu Tomoko
    Laboratory for Plant Genome Informatics, Kazusa DNA Research Institute Laboratory for Plant Genome Informatics, Kazusa DNA Research Institute
  • Nakamura Yasukazu
    Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems
  • Nakahira-Yanaka Yuka
    Graduate School of Life and Environment Sciences, University of Tsukuba Graduate School of Life and Environment Sciences, University of Tsukuba
  • Takada Hoshino Yuko
    National Institute for Agro-Environmental Sciences National Institute for Agro-Environmental Sciences
  • Hirakawa Hideki
    Laboratory for Plant Genome Informatics, Kazusa DNA Research Institute Laboratory for Plant Genome Informatics, Kazusa DNA Research Institute
  • Mitsui Hisayuki
    Graduate School of Life Sciences, Tohoku University Graduate School of Life Sciences, Tohoku University
  • Terasawa Kimihiro
    Graduate School of Life Sciences, Tohoku University Graduate School of Life Sciences, Tohoku University
  • Itakura Manabu
    Graduate School of Life Sciences, Tohoku University Graduate School of Life Sciences, Tohoku University
  • Sato Shusei
    Graduate School of Life Sciences, Tohoku University Laboratory for Plant Genome Informatics, Kazusa DNA Research Institute Graduate School of Life Sciences, Tohoku University Laboratory for Plant Genome Informatics, Kazusa DNA Research Institute
  • Ikeda-Ohtsubo Wakako
    Graduate School of Life Sciences, Tohoku University Graduate School of Life Sciences, Tohoku University
  • Sakakura Natsuko
    Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems
  • Kaminuma Eli
    Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems
  • Minamisawa Kiwamu
    Graduate School of Life Sciences, Tohoku University Graduate School of Life Sciences, Tohoku University

Bibliographic Information

Other Title
  • Complete Genome Sequence of Bradyrhizobium sp. S23321 : Insights into Symbiosis Evolution in Soil Oligotrophs

Search this article

Description

Bradyrhizobium sp. S23321 is an oligotrophic bacterium isolated from paddy field soil. Although S23321 is phylogenetically close to Bradyrhizobium japonicum USDA110, a legume symbiont, it is unable to induce root nodules in siratro, a legume often used for testing Nod factor-dependent nodulation. The genome of S23321 is a single circular chromosome, 7,231,841 bp in length, with an average GC content of 64.3%. The genome contains 6,898 potential protein-encoding genes, one set of rRNA genes, and 45 tRNA genes. Comparison of the genome structure between S23321 and USDA110 showed strong colinearity; however, the symbiosis islands present in USDA110 were absent in S23321, whose genome lacked a chaperonin gene cluster (groELS3) for symbiosis regulation found in USDA110. A comparison of sequences around the tRNA-Val gene strongly suggested that S23321 contains an ancestral-type genome that precedes the acquisition of a symbiosis island by horizontal gene transfer. Although S23321 contains a nif (nitrogen fixation) gene cluster, the organization, homology, and phylogeny of the genes in this cluster were more similar to those of photosynthetic bradyrhizobia ORS278 and BTAi1 than to those on the symbiosis island of USDA110. In addition, we found genes encoding a complete photosynthetic system, many ABC transporters for amino acids and oligopeptides, two types (polar and lateral) of flagella, multiple respiratory chains, and a system for lignin monomer catabolism in the S23321 genome. These features suggest that S23321 is able to adapt to a wide range of environments, probably including low-nutrient conditions, with multiple survival strategies in soil and rhizosphere.<br>

Journal

  • Microbes and Environments

    Microbes and Environments 27 (3), 306-315, 2012

    Japanese Society of Microbial Ecology / Japanese Society of Soil Microbiology / Taiwan Society of Microbial Ecology / Japanese Society of Plant Microbe Interactions / Japanese Society for Extremophiles

Citations (15)*help

See more

References(72)*help

See more

Related Projects

See more

Keywords

Details 詳細情報について

Report a problem

Back to top