Comparative genomics of Bradyrhizobia toward uncovering relationshipbetween the genetic elements and the biological effects in soybean symbiosis

• Project/Area Number: 21310130
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Applied genomics
• Research Institution: Kyoto Sangyo University
• Principal Investigator: KANEKO Takakazu 京都産業大学, 総合生命科学部, 准教授 (80370922)
• Co-Investigator(Kenkyū-buntansha): SATO Shusei 公益財団法人かずさDNA研究所, 植物ゲノム研究部, 室長 (70370921)
• Co-Investigator(Renkei-kenkyūsha): MINAMISAWA Kiwamu 東北大学, 生命科学研究科, 教授 (70167667)
• Project Period (FY): 2009 – 2012
• Project Status: Completed (Fiscal Year 2012)
• Budget Amount: ¥12,610,000 (Direct Cost: ¥9,700,000、Indirect Cost: ¥2,910,000); Fiscal Year 2012: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000); Fiscal Year 2011: ¥2,470,000 (Direct Cost: ¥1,900,000、Indirect Cost: ¥570,000); Fiscal Year 2010: ¥3,250,000 (Direct Cost: ¥2,500,000、Indirect Cost: ¥750,000); Fiscal Year 2009: ¥5,460,000 (Direct Cost: ¥4,200,000、Indirect Cost: ¥1,260,000)
• Keywords: ゲノム / 植物 / 微生物 / 窒素固定 / 共生 / ダイズ / ゲノムアイランド

Research Abstract

The nucleotide sequences of the genomes of four Bradyrhizobial strains were determined.Comparison of their genome structures, especially constitution of the genomic islands,was explored based on the genomic information. A significantly high level of sequenceconservation was detected in symbiosis islands on USDA110 and USDA6 genomes. Diversityof the symbiosis islands of B.japonicum and B.elkanii represented some differentsymbiotic aspects between them.

Research Products

• [Journal Article] The type III Secretion System of Bradyrhizobium japonicum USDA122 mediates symbiotic incompatibility with Rj2 soybean plants (2013)
  • Author(s): Tsukui T, Eda S, Kaneko T, Sato S,Okazaki S, Kakizaki-Chiba K, Itakura M,Mitsui H, Yamashita A, Terasawa K,Minamisawa K
  • Journal Title: Appl Environ Microbiol Volume: 79 Issue: 3 Pages: 1048-1051
  • DOI: 10.1128/aem.03297-12
  • Peer Reviewed
• [Journal Article] Complete genome sequence of the soybean symbionts Bradyrhizobium japonicum strain USDA6T (2011)
  • Author(s): Kaneko, T.
  • Journal Title: Genes Volume: 2 Issue: 4 Pages: 763-787
  • DOI: 10.3390/genes2040763
  • Peer Reviewed
• [Journal Article] Community- and genome-based views of plant-associated bacteria:plant-bacterial interactions in soybean and rice (2010)
  • Author(s): keda S, Okubo T, Anda M, Nakashita H,Yasuda M, Sato S, Kaneko T, Tabata S, Eda S, Momiyama A, Terasawa K, Mitsui H,Minamisawa K
  • Journal Title: Plant Cell Physiol Volume: 51 Issue: 9 Pages: 1398-1410
  • DOI: 10.1093/pcp/pcq119
  • Peer Reviewed
• [Journal Article] Community- and genome-based views of plant-associated bacteria : plant-bacterial interactions in soybean and rice (2010)
  • Author(s): Ikeda S.
  • Journal Title: Plant Cell Physiology Volume: 51 Pages: 1398-1410
• [Presentation] ダイズ根粒菌Bradyrhizobium elkaniiのゲノム構造解析 (2012)
  • Author(s): 金子貴一
  • Organizer: 日本微生物ゲノム学会
  • Place of Presentation: 立教大学(豊島区)
  • Year and Date: 2012-03-11
• [Presentation] ダイズ根粒菌TypeIII分泌系によるRj2ダイズ共生不和合性の誘導 (2012)
  • Author(s): 津久井隆裕、江田志磨、金子貴一、佐藤修正、岡崎伸、柿崎(千葉)芳里、板倉学、三井久幸、南澤究
  • Organizer: 第22回植物微生物研究交流会
  • Place of Presentation: 神戸市
• [Presentation] ダイズ根粒菌Bradyrhizobium elkanii USDA61のゲノム構造解析 (2012)
  • Author(s): 宮澤幸樹、飛彈英伸、太田公平、佐藤修正、平川英樹、田畑哲之、岡崎伸、佐伯和彦、金子貴一
  • Organizer: 第22回植物微生物研究交流会
  • Place of Presentation: 神戸市
• [Presentation] Bradyrhizobium japonicum Character Predicted from Genomic Comparison of Two Strains (2012)
  • Author(s): Kaneko T, Uchiike N, Maita H, Hirakawa H, Minamisawa K, Watanabe A, Sato S
  • Organizer: The XV Congress on Molecular Plant-Microbe Interactions
  • Place of Presentation: Kyoto
• [Presentation] Activation of the host symbiosis signaling by rhizobial type III secretion system (2012)
  • Author(s): Okazaki S, Kaneko T, Sato S, Saeki K
  • Organizer: The XV Congress on Molecular Plant-Microbe Interactions
  • Place of Presentation: Kyoto
• [Presentation] Comparative genome analysis of Mesorhizobium loti strains (2012)
  • Author(s): Maita H, Hirakawa H, Nakamura Y, Kaneko T, Tabata S., Saeki K, Sato S
  • Organizer: The XV Congress on Molecular Plant-Microbe Interactions
  • Place of Presentation: Kyoto
• [Presentation] ダイズ根粒菌Bradyrhizobiumelkaniiのゲノム構造解析 (2012)
  • Author(s): 金子貴一,宮澤幸樹,飛彈英伸,平川英樹,渡辺安希子,田畑哲之,佐藤修正
  • Organizer: 第6回日本ゲノム微生物学会年会
  • Place of Presentation: 豊島区
• [Presentation] ダイズ根粒菌Type III分泌系によるRj2ダイズ共生不和合性の誘導 (2012)
  • Author(s): 津久井隆裕
  • Organizer: 植物微生物研究会第22回研究交流会
  • Place of Presentation: 神戸
• [Presentation] ダイズ根粒菌Bradyrhizobium elkanii USDA61のゲノム構造解析 (2012)
  • Author(s): 宮澤幸樹
  • Organizer: 植物微生物研究会第22回研究交流会
  • Place of Presentation: 神戸
• [Presentation] Activation of the host symbiosis signaling by rhizobial type III secretion system (2012)
  • Author(s): Okazaki S.
  • Organizer: XV International Congress of Molecular Plant-Microbe Interacions
  • Place of Presentation: 京都
• [Presentation] Bradyrhizobium japonicum character predicted from genomic comparison of two strains (2012)
  • Author(s): Kaneko T.
  • Organizer: XV International Congress of Molecular Plant-Microbe Interacions
  • Place of Presentation: 京都
• [Presentation] Comparative genome analysis of Mesorhizobium loti strains (2012)
  • Author(s): Maita H.
  • Organizer: XV International Congress of Molecular Plant-Microbe Interacions
  • Place of Presentation: 京都
• [Presentation] ダイズ根粒菌Bradyrhizobium japonicum strain USDA6^Tのゲノム構造解析 (2011)
  • Author(s): 金子貴一
  • Organizer: 植物微生物研究会
  • Place of Presentation: 岡山大学(岡山市)
  • Year and Date: 2011-09-21
• [Presentation] 宿主遺伝子特異的な共生不和合性をもつダイズ根粒菌のゲノム解析 (2011)
  • Author(s): 津久井隆裕、金子貴一、佐藤修正、山田学、板倉学、山下明史、三井久幸、江田志磨、南澤究
  • Organizer: 第5回日本ゲノム微生物学会年会
  • Place of Presentation: 仙台市
• [Presentation] ダイズ根粒菌Bradyrhizobium japonicum strain USDA6のゲノム構造解析 (2011)
  • Author(s): 金子貴一、内池伸和、南澤究、渡辺安希子、山田学、佐藤修正
  • Organizer: 第5回日本ゲノム微生物学会年会
  • Place of Presentation: 仙台市
• [Presentation] ミヤコグサ根粒菌Mesorhizobium lotiにおける共生アイランドの比較解析 (2011)
  • Author(s): 眞板寛子、平川英樹、中村保一、金子貴一、佐伯和彦、田畑哲之、佐藤修正
  • Organizer: 第5回日本ゲノム微生物学会年会
  • Place of Presentation: 仙台市
• [Presentation] ダイズ根粒菌Bradyrhizobium japonicum strain USDA6のゲノム構造解析 (2011)
  • Author(s): 金子貴一、眞板寛子、内池伸和、南澤究、渡辺安希子、山田学、佐藤修正
  • Organizer: 植物微生物研究会
  • Place of Presentation: 岡山市
• [Presentation] Comparative sequence analysis of the symbiosis island of Bradyrhizobium japonicum strain USDA6. (2010)
  • Author(s): Takakazu Kaneko
  • Organizer: 1st Asian Conference on Plant Microbe Symbiosis and Nitrogen Fixation
  • Place of Presentation: 宮崎市
  • Year and Date: 2010-09-20
• [Presentation] ダイズ根粒菌Bradyrhizobium japonicumUSDA122株とUSDA110株のゲノム比較 (2010)
  • Author(s): 津久井隆裕
  • Organizer: 環境バイオテクノロジー学会2010年度大会
  • Place of Presentation: 仙台市
  • Year and Date: 2010-06-21
• [Presentation] ダイズ根粒菌Bradyrhizobium japonicumUSDA122株とUSDA110株のゲノム比較:USDA122株特異的遺伝子の探索 (2010)
  • Author(s): 津久井隆裕
  • Organizer: 日本土壌微生物学会 2010年度大会
  • Place of Presentation: 東京都文京区
  • Year and Date: 2010-05-21
• [Presentation] 根粒菌Mesorhizobium lotiの共生アイランドにおける比較解析 (2010)
  • Author(s): 眞板寛子、平川英樹、中村保一、金子貴一、佐伯和彦、田畑哲之、佐藤修正
  • Organizer: 第33回日本分子生物学会年会
  • Place of Presentation: 神戸市
• [Presentation] Community shifts of soybean-associated microbes by host nodulation phenotypes and nitrogen applications (2010)
  • Author(s): Ikeda S, Okubo T, Kaneko T, Inaba S,Sasaki K, Anda M, Eda S, Sato S, Tabata S, Sato T, Mitsui H, Minamisawa K
  • Organizer: 1st Asian Conference on Plant Microbe Symbiosis and Nitrogen Fixation
  • Place of Presentation: Miyazaki
• [Presentation] Comparative sequence analysis of the symbiosis island of Bradyrhizobium japonicum strain USDA6 (2010)
  • Author(s): Kaneko T, Minamisawa K, Watanabe A,Kawashima K, Minami C, Katoh M, Nakazaki N, Yamada M, and Sato S
  • Organizer: 1st Asian Conference on Plant Microbe Symbiosis and Nitrogen Fixation
  • Place of Presentation: Miyazaki
• [Presentation] ダイズ根粒菌Bradyrhizobium japonicum USDA122株とUSDA110株のゲノム比較 (2010)
  • Author(s): 津久井隆裕、金子貴一、佐藤修正、山田学、板倉学、山下明史、三井久幸、江田志磨、南澤究
  • Organizer: 環境バイオテクノロジー学会2010年度大会
  • Place of Presentation: 仙台市
• [Presentation] ダイズ根粒菌Bradyrhizobium japonicum USDA122株とUSDA110株のゲノム比較:USDA122株特異的遺伝子の探索 (2010)
  • Author(s): 津久井隆裕、金子貴一、佐藤修正、山田学、板倉学、三井久幸、江田志磨、南澤究
  • Organizer: 日本土壌微生物学会2010年度大会
  • Place of Presentation: 文京区
• [Remarks] ゲノム解析成果の公開:RhizoBase
  • URL: http://genome.microbedb.jp/rhizobase
• [Remarks] ゲノムクローン配布:LegumeBase
  • URL: http://www.legumebase.brc.miyazaki-u.ac.jp
• [Remarks] RhizoBase
  • URL: http://genome.microbedb.jp/rhizobase/USDA6