Oligonucleotide microarrays for the study of coastal microbial communities

Gaspar Taroncher-Oldenburg, Bettie Ward

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract

DNA microarrays are well suited as a tool for analyzing functional gene diversity as well as community composition in aquatic environments. Microarrays allow for the semiquantitative characterization of target genes by means of specific hybridization of labeled target gene sequences, amplified from the environment, to the corresponding oligonucleotide probes on the slide. Specificity and sensitivity are determined by the probe design. In their current implementation, environmental DNA microarrays are useful for analyzing microbial communities as well as for analyzing the presence of functional genes involved in larger biogeochemical processes, such as nitrogen cycling. Here, we lay out a basic protocol to analyze genes in the environment, which can be applied to most target genes of interest.

Original languageEnglish (US)
Title of host publicationProtocols for Nucleic Acid Analysis by Nonradioactive Probes
Subtitle of host publicationSecond Edition
EditorsElena Hilario, John Mackay
Pages301-315
Number of pages15
DOIs
StatePublished - Jan 11 2007

Publication series

NameMethods in Molecular Biology
Volume353
ISSN (Print)1064-3745

All Science Journal Classification (ASJC) codes

  • Molecular Biology
  • Genetics

Keywords

  • 70-mer
  • Chesapeake bay
  • Choptank river
  • Functional gene
  • Hybridization
  • NirS
  • Nitrite reductase
  • Oligonucleotide microarray

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  • Cite this

    Taroncher-Oldenburg, G., & Ward, B. (2007). Oligonucleotide microarrays for the study of coastal microbial communities. In E. Hilario, & J. Mackay (Eds.), Protocols for Nucleic Acid Analysis by Nonradioactive Probes: Second Edition (pp. 301-315). (Methods in Molecular Biology; Vol. 353). https://doi.org/10.1385/1-59745-229-7:301