Detecting genomic islands using bioinformatics approaches

Nat Rev Microbiol. 2010 May;8(5):373-82. doi: 10.1038/nrmicro2350.

Abstract

Bacterial genomes contain clusters of genes that are acquired by horizontal transfer, called genomic islands (GIs). GIs are frequently associated with microbial adaptations that are of medical and environmental interest, and they have had a substantial impact on bacterial evolution. Therefore, there is growing interest in efficiently identifying GIs in newly sequenced bacterial genomes. Several computational methods for detecting GIs have been developed recently, presenting researchers with a myriad of choices. Here, we discuss the limitations and benefits of the main approaches that are available and present guidelines to aid researchers in effectively identifying these important genomic regions.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't
  • Review

MeSH terms

  • Bacteria / genetics
  • Bacteria / pathogenicity
  • Computational Biology / methods*
  • Databases, Genetic
  • Genome, Bacterial*
  • Genomic Islands*
  • Genomics / methods
  • Genomics / statistics & numerical data
  • Virulence / genetics

Grant support