2005

Methods in Gut Microbial Ecology for Ruminants

Editors:

ISBN: 978-1-4020-3790-0 (Print) 978-1-4020-3791-7 (Online)

Table of contents (17 chapters)

  1. Designing **in vivo microbial ecology studies

    1. No Access

      Book Chapter

      Pages 3-19

      Experimental designs for rumen microbiology

  2. Classical methods for isolation, enumeration, cultivation and functional assays of rumen microbes

    1. No Access

      Book Chapter

      Pages 23-37

      Rumen bacteria

    2. No Access

      Book Chapter

      Pages 39-46

      Bacteriophages

    3. No Access

      Book Chapter

      Pages 47-53

      Methanogenic archaea

    4. No Access

      Book Chapter

      Pages 55-66

      Anaerobic fungi

    5. No Access

      Book Chapter

      Pages 67-78

      Ciliate protozoa

  3. PCR-based methods for analysis of populations and gene expression

    1. No Access

      Book Chapter

      Pages 81-104

      Nucleic acid extraction, oligonucleotide probes and PCR methods

    2. No Access

      Book Chapter

      Pages 105-115

      Quantitative (real-time) PCR

  4. Molecular fingerprinting techniques for genotypic analysis of pure cultures and microbial communities

    1. No Access

      Book Chapter

      Pages 119-128

      Denaturing gradient gel electrophoresis

    2. No Access

      Book Chapter

      Pages 129-137

      Bacteriophage populations

    3. No Access

      Book Chapter

      Pages 139-150

      Anaerobic fungal populations

    4. No Access

      Book Chapter

      Pages 151-159

      RAPD, RFLP, T-RFLP, AFLP, RISA

  5. DNA clone libraries of microbial communities

    1. No Access

      Book Chapter

      Pages 163-174

      16S/18S ribosomal DNA clone library analysis of rumen microbial diversity

  6. Use of small subunit ribosomal RNA directed oligonucleotide probes for microbial population studies

    1. No Access

      Book Chapter

      Pages 177-190

      Northern blot analysis to investigate the abundance of microorganisms

    2. No Access

      Book Chapter

      Pages 191-199

      Whole cell probing with fluorescently labelled probes for in situ analysis of microbial populations

    3. No Access

      Book Chapter

      Pages 201-206

      Combined fluorescence in situ hybridization and microautoradiography (FISH-MAR)

  7. Genomic analysis of microbial ecosystems

    1. No Access

      Book Chapter

      Pages 209-220

      Metagenomic analysis of the microbiomes in ruminants and other herbivores