Skip to main content

Northern blot analysis to investigate the abundance of microorganisms

  • Chapter
  • 1306 Accesses

Keywords

  • rRNA Extract
  • Transparent Plastic Wrap

These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

This is a preview of subscription content, access via your institution.

Buying options

Chapter
USD   29.95
Price excludes VAT (USA)
  • DOI: 10.1007/1-4020-3791-0_14
  • Chapter length: 14 pages
  • Instant PDF download
  • Readable on all devices
  • Own it forever
  • Exclusive offer for individuals only
  • Tax calculation will be finalised during checkout
eBook
USD   219.00
Price excludes VAT (USA)
  • ISBN: 978-1-4020-3791-7
  • Instant PDF download
  • Readable on all devices
  • Own it forever
  • Exclusive offer for individuals only
  • Tax calculation will be finalised during checkout
Softcover Book
USD   279.99
Price excludes VAT (USA)
Hardcover Book
USD   279.99
Price excludes VAT (USA)

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. Amann, R., and W. Ludwig. 2000. Ribosomal RNA-targeted nucleic acid probes for studies in microbial ecology. FEMS Microbiol. Rev. 24:555–565.

    CAS  PubMed  Google Scholar 

  2. Ashelford, K.E., A.J. Weightman, and J.C. Fry. 2002. PRIMROSE: a computer program for generating and estimating the phylogenetic range of 16S rRNA oligonucleotide probes and primers in conjunction with the RDP-II database. Nucleic Acids Res. 30:3481–3489.

    CrossRef  CAS  PubMed  Google Scholar 

  3. Barnes, S.M., R.E. Fundyga, M.W. Jeffries, and N.R. Pace. 1994. Remarkable archaeal diversity detected in a Yellowstone National Park hot spring environment. Proc. Natl. Acad. Sci. 91:1609–1613.

    Google Scholar 

  4. Chandler, D.P., C.A. Wagnon, and J.H.B. Bolton. 1998. Reverse transcriptase (RT) inhibition of PCR at low concentrations of template and its implications for quantitative RT-PCR. Appl. Environ. Microbiol. 64:669–677.

    CAS  PubMed  Google Scholar 

  5. Harris, J.K., S.T. Kelley, G.B. Spiegelman, and N.R. Pace. 2003. The genetic core of the universal ancestor. Genome Res. 13:407–412.

    CrossRef  CAS  PubMed  Google Scholar 

  6. Hugenholtz, P., B.M. Goebel, and N.R. Pace. 1998. Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J. Bacteriol. 180:4765–4774.

    CAS  PubMed  Google Scholar 

  7. Krause, D.O., R.J. Bunch, L.L. Conlan, P.M. Kennedy, W.J. Smith, R.I. Mackie, and C.S. McSweeney. 2001. Repeated ruminal dosing of Ruminococcus spp. does not result in persistence, but changes in other microbial populations occur that can be measured with quantitative 16S-rRNA-based probes. Microbiol. 147:1719–1729.

    CAS  Google Scholar 

  8. Krause, D.O., B.P. Dalrymple, W.J. Smith, R.I. Mackie, and C.S. McSweeney. 1999. 16S rDNA sequencing of Ruminococcus albus and Ruminococcus flavefaciens: design of a signature probe and its application in adult sheep. Microbiol. 145:1797–1807.

    CAS  Google Scholar 

  9. Krause, D.O., and J.B. Russell. 1996. An rRNA approach for assessing the role of obligate amino acid-fermenting bacteria in ruminal amino acid deamination. Appl. Environ. Microbiol. 62:815–821.

    CAS  PubMed  Google Scholar 

  10. Krause, D.O., W.J. Smith, and C.S. McSweeney. 2001. Extraction of microbial DNA from rumen contents containing plant tannins. Biotechniques 31:294–298.

    CAS  PubMed  Google Scholar 

  11. Leedle, J.A.Z., M.P. Bryant, and R.B. Hespell. 1982. Diurnal variations in bacterial numbers and fluid parameters in ruminal contents of animals fed low-or high-forage diets. Appl. Environ. Microbiol. 44:402–412.

    CAS  PubMed  Google Scholar 

  12. Maidak, B.L., J.R. Cole, T.G. Lilburn, C.T. Parker Jr., P.R. Saxman, R.J. Farris, G.M. Garrity, G.J. Olsen, T.M. Schmidt, and J.M. Tiedje. 2001. The RDP-II (Ribosomal Database Project). Nucleic Acids Res. 29:173–174.

    CrossRef  CAS  PubMed  Google Scholar 

  13. McSweeney, C.S., B. Palmer, R. Bunch, and D.O. Krause. 2001. Effect of the tropical forage calliandra on microbial protein synthesis and ecology in the rumen. J. Appl. Microbiol. 90:78–88.

    CrossRef  CAS  PubMed  Google Scholar 

  14. Pace, N.R. 1997. A molecular view of microbial diversity and the biosphere. Science 276:734–740.

    CrossRef  CAS  PubMed  Google Scholar 

  15. Pace, N.R., D.A. Stahl, D.J. Lane, and G.J. Olsen. 1985. Analyzing natural microbial populations by rRNA sequences. ASM News 51:4–12.

    Google Scholar 

  16. Raskin, L., W.C. Capman, R. Sharp, L.K. Poulsen, and D.A. Stahl. 1997. Molecular Ecology of Gastrointestinal Ecosystems, pp. 243–298. In R.I. Mackie, R.E. White, and R.E. Isaacson (eds.), Chapman & Hall, Melbourne.

    Google Scholar 

  17. Stahl, D.A., B. Flesher, H.R. Mansfield, and L. Montgomery. 1988. Use of phylogenetically based hybridization probes for studies of ruminal microbial ecology. Appl. Environ. Microbiol. 54:1079–1084.

    CAS  PubMed  Google Scholar 

  18. Stahl, D.A., D.L. Lane, G.J. Olsen, and N.R. Pace. 1985. Characterization of a Yellowstone hot spring microbial community by 5S rRNA sequences. Appl. Environ. Microbiol. 49:1379–1384.

    CAS  PubMed  Google Scholar 

  19. Teather, R.M., M.A. Hefford, and R.J. Forster. 1997. Genetics of rumen bacteria, pp. 427–466. In Anonymous. The Rumen Microbial Ecosystem. Blackie Academic & Professional, Melbourne.

    Google Scholar 

  20. Woese, C. R. 1987. Bacterial evolution. Microbiol. Rev. 51:221–271.

    CAS  PubMed  Google Scholar 

  21. Woese, C.R., and G.E. Fox. 1977. Phylogenetic structure of the prokaryotic domain: the primary kingdoms. Proc. Natl. Acad. Sci. U.S.A. 74:5088–5090.

    CAS  PubMed  Google Scholar 

  22. Yang, C.-M.J., and J.B. Russell. 1993. The effect of monensin supplementation on ruminal ammonia accumulation in vivo and numbers of amino acid fermenting bacteria. J. Anim. Sci. 71:3470–3476.

    CAS  PubMed  Google Scholar 

  23. Zuckerkandl, E., and L. Pauling. 1965. Molecules as documents of evolutionary history. J. Theor. Biol. 8:357–366.

    CAS  PubMed  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Editor information

Editors and Affiliations

Rights and permissions

Reprints and Permissions

Copyright information

© 2005 IAEA

About this chapter

Cite this chapter

Krause, D.O. (2005). Northern blot analysis to investigate the abundance of microorganisms. In: Makkar, H.P., McSweeney, C.S. (eds) Methods in Gut Microbial Ecology for Ruminants. Springer, Dordrecht. https://doi.org/10.1007/1-4020-3791-0_14

Download citation