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Challenges to explore uncultivable but functional bacteria in the rumen

Research Project

Project/Area Number 15580231
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeSingle-year Grants
Section一般
Research Field Zootechnical science/Grassland science
Research InstitutionHokkaido University

Principal Investigator

KOBAYASHI Yasuo  Hokkaido Univ., Grad.School of Agr., Prof., 大学院・農学研究科, 教授 (50153648)

Project Period (FY) 2003 – 2004
Project Status Completed (Fiscal Year 2004)
Budget Amount *help
¥3,500,000 (Direct Cost: ¥3,500,000)
Fiscal Year 2004: ¥800,000 (Direct Cost: ¥800,000)
Fiscal Year 2003: ¥2,700,000 (Direct Cost: ¥2,700,000)
KeywordsRumen / Uncultured bacteria / 16S rDNA / Real time PCR / Fiber degradation / primer / Attachment dynamics / Biomass / 細菌 / 培養不能 / PCR / ライブラリー
Research Abstract

The present study is to explore ecology and function of uncultivated rumen bacteria through molecular biological techniques. By comparative 16SrDNA sequencing analysis of fiber-associated bacteria (bacteria tightly adherent to rice straw stems), the following results were obtained.
1.So far uncharacterized rumen bacteria were found and mainly grouped into 3 clusters (U1 through U3). U1 was in PFB phylum comprising bacteria closely related to Bacteroides, while U2 was the group close to the wood fiber digesting bacterium Clostridium aldrichii. U3 had the hemicellulolytic rumen bacterium Eubacterium ruminantium as a closest relative.
2.PCR primers specific to U2 and U3 were designed for developing real-time PCR assays to quantitate these groups. The developed assays were highly sensitive, reliable in reproducibility, and allowed rapid monitoring of each bacterial group. Such reliable assays were established for total 14 bacterial species or groups that were associated with ruminally incubated straw stems.
3.Of tightly adherent bacteria, Fibrobacter succinogenes, a potent fibrolytic species, was major in its biomass followed by U2. Also, U2 showed time-course on stems just as F.succinogenes. These results strongly suggest significant contribution of U2 to rumen fiber digestion.
4.Since many Clostridium-like bacteria with protuberance structure were observed on stems under scanning electronic microscopy, these might be U2 bacteria. Therefore, U2 could be enriched on straw sterns and isolated by using heat treatment to inoculum before cultivation.

Report

(3 results)
  • 2004 Annual Research Report   Final Research Report Summary
  • 2003 Annual Research Report
  • Research Products

    (28 results)

All 2005 2004 2003 Other

All Journal Article (18 results) Book (3 results) Publications (7 results)

  • [Journal Article] 草食動物消化管の難培養性微生物を探る2005

    • Author(s)
      小林泰男
    • Journal Title

      化学と生物 43

      Pages: 7-9

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Exploration of uncultivable microbes in alimentary tract of herbivorous animals.2005

    • Author(s)
      Kobayashi, Y.
    • Journal Title

      Chemistry and Biology 43

      Pages: 7-9

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] 草食動物消化管の難培養性微生物を探る2005

    • Author(s)
      小林泰男
    • Journal Title

      化学と生物 43・1

      Pages: 7-9

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Ruminal distribution of the cellulolytic bacterium Fibrobacter succinogenes in relation to its phylogenetic grouping.2004

    • Author(s)
      Koike Satoshi
    • Journal Title

      Animal Science Journal 75

      Pages: 417-422

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Partial characterization of structure and function of a xylanase gene from the rumen hemicellulolytic bacterium.2004

    • Author(s)
      Taguchi Hidenori
    • Journal Title

      Animal Science Journal 75

      Pages: 325-332

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Rumen microbes and fermentation of wild sika deer on the Shiretoko peninsula of Hokkaido island, Japan.2004

    • Author(s)
      Ichimura Yasuhiro
    • Journal Title

      Ecological Research 19

      Pages: 389-395

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Ruminal distribution of the cellulolytic bacterium Fibrobacter succinogenes in relation to its phologenetic grouping.2004

    • Author(s)
      Koike, S. et al.
    • Journal Title

      Animal Science Journal 75

      Pages: 417-422

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Partial characterization of structure and function of a xylanase gene from the rumen hemicellulolytic bacterium.2004

    • Author(s)
      Taguchi, H. et al.
    • Journal Title

      Animal Science Journal 75

      Pages: 325-332

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Rumen microbes and fermentation of wild sika deer on the Shiretoko peninsula of Hokkaido island, Japan2004

    • Author(s)
      Ichimura, Y. et al.
    • Journal Title

      Ecological Research 19

      Pages: 389-395

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Ruminal distribution of the celluloytic bacterium Fibrobacter succinogenes in relation to its phylogenetic grouping2004

    • Author(s)
      Koike Satoshi
    • Journal Title

      Animal Science Journal 75・5

      Pages: 417-422

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Partial characterization of structure and function of a xylanase gene from the rumen hemicellulolytic bacterium2004

    • Author(s)
      Taguchi Hidenori
    • Journal Title

      Animal Science Journal 75・4

      Pages: 325-332

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Rumen microbes and fermentatium of wild shika deer on the Shiretoko peninsula of Hokkaido island, Japan2004

    • Author(s)
      Ichimura Yasuhiro
    • Journal Title

      Ecological Research 19・4

      Pages: 389-395

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Phylogenetic analysis of fiber-associated rumen bacterial community and PCR detection of uncultured bacteria.2003

    • Author(s)
      Koike Satoshi
    • Journal Title

      FEMS Microbiology Letters 227

      Pages: 23-30

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Recombinant rumen bacteria : problems and opportunities2003

    • Author(s)
      Kobayashi Yasuo
    • Journal Title

      Nutrition Abstract and Reviews 73

      Pages: 51-59

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Phylogenetic analysis of fiber-associated rumen bacterial community and PCR detection of uncultured bacteria.2003

    • Author(s)
      Koike, S. et al.
    • Journal Title

      FEMS Microbiology Letters 229

      Pages: 23-30

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Recombinant rumen bacteria : problems and opportunities.2003

    • Author(s)
      Kobayashi, Y.
    • Journal Title

      Nutrition Abstract and Reviews 73

      Pages: 51-59

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Phylogenetic analysis of fiber-associated rumen bacterial community and PCR detection of uncultured bacteria2003

    • Author(s)
      Koike Satoshi
    • Journal Title

      FEMS Microbiology Letters 229・1

      Pages: 23-30

    • Related Report
      2004 Annual Research Report
  • [Journal Article] Recombinant rumen bacteria : problems and opportunities2003

    • Author(s)
      Kobayashi Yasuo
    • Journal Title

      Nutrition Abstracts and Reviews 73・11

      Pages: 51-59

    • Related Report
      2004 Annual Research Report
  • [Book] 新ルーメンの世界2004

    • Author(s)
      小林泰男
    • Total Pages
      605
    • Publisher
      農村漁村文化協会
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Book] New decade of the rumen2004

    • Author(s)
      Kobayashi, Y.
    • Publisher
      No-San-Gyo son Bunka Kyokai
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Book] 新ルーメンの世界2004

    • Author(s)
      小林泰男
    • Total Pages
      605
    • Publisher
      農山漁村文化協会
    • Related Report
      2004 Annual Research Report
  • [Publications] Ichimura, Y.: "Seasonal variation in ingested feeds, fermentation characteristics and microbes in the rumen of wild sika deer in the Shiretoko peninsula"Ecological Research. (印刷中).

    • Related Report
      2003 Annual Research Report
  • [Publications] Kobayashi, Y.: "Molecular detection of verotoxigenic Escherichia coli from animal faces for screening VTEC-shedders"Asian-American Journal of Animal Sciences. 17. 423-427 (2004)

    • Related Report
      2003 Annual Research Report
  • [Publications] Koike, S.: "Phylogenetic analysis of fiber-associated rumen bacterial community and PCR detection of uncultured bacteria"FEMS Microbiology Letters. 229. 23-30 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Kobayashi, Y.: "Recombinant rumen bacteria : problems and opportunities"Nutrition Abstracts and Reviews. 73. 51-59 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Kobayashi, Y.: "Expression and expert of a Ruminococcusalbus cellulase in Butyrivibrio fibrisolvens through the use of an alternative gene promoter and signal sequence"Canadian Journal of Microbiology. 49. 375-382 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Koike, S.: "Kinetics of in sacco fiber-attachment of representative ruminal cellulolytic bacteria monitored by competitive PCR"Journal of Dairy Science. 86. 1429-1435 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] 小林泰男: "新ルーメンの世界"農山漁村文化協会(印刷中). (2004)

    • Related Report
      2003 Annual Research Report

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Published: 2003-04-01   Modified: 2016-04-21  

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