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Oligonucleotide microarray methodology for taxonomic and functional monitoringof microbial community composition

Author

Listed:
  • M. Kyselková

    (Universitéde Lyon, F-69622, Lyon, France
    UniversitéLyon 1, Villeurbanne, France
    CNRS, UMR5557, Ecologie Microbienne, Villeurbanne, France)

  • J. Kopecký

    (Crop Research Institute, Prague, Czech Republic)

  • M. Ságová-Marečková

    (Crop Research Institute, Prague, Czech Republic)

  • G.L. Grundmann

    (Universitéde Lyon, F-69622, Lyon, France
    UniversitéLyon 1, Villeurbanne, France
    CNRS, UMR5557, Ecologie Microbienne, Villeurbanne, France)

  • Y. Moënne-Loccoz

    (Universitéde Lyon, F-69622, Lyon, France
    UniversitéLyon 1, Villeurbanne, France
    CNRS, UMR5557, Ecologie Microbienne, Villeurbanne, France)

Abstract

Microarray analysis is a cultivation-independent, high-throughput technology that can be used for direct and simultaneous identification of microorganisms in complex environmental samples. This review summarizes current methodologies for oligonucleotide microarrays used in microbial ecology. It deals with probe design, microarray manufacturing, sample preparation and labeling, and data handling, as well as with the key features of microarray analysis such as specificity, sensitivity and quantification potential. Microarray analysis has been validated as an effective approach to describe the composition and dynamics of taxonomic and functional microbial communities, in environments including soil, compost, sediment, air or humans. It is now part of the technical arsenal available to address key issues in microbial community ecology, ranging from biogeography to ecosystem functioning.

Suggested Citation

  • M. Kyselková & J. Kopecký & M. Ságová-Marečková & G.L. Grundmann & Y. Moënne-Loccoz, 2009. "Oligonucleotide microarray methodology for taxonomic and functional monitoringof microbial community composition," Plant, Soil and Environment, Czech Academy of Agricultural Sciences, vol. 55(9), pages 379-388.
    • Handle: RePEc:caa:jnlpse:v:55:y:2009:i:9:id:140-2009-pse
    DOI: 10.17221/140/2009-PSE
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