Evaluation of the GenBank, EzTaxon, and BIBI services for molecular identification of clinical blood culture isolates that were unidentifiable or misidentified by conventional methods

J Clin Microbiol. 2012 May;50(5):1792-5. doi: 10.1128/JCM.00081-12. Epub 2012 Mar 7.

Abstract

We compared the 16S rRNA gene sequencing results analyzed with the GenBank, EzTaxon, and BIBI databases for blood culture specimens for which identifications were incomplete, conflicting, or unidentifiable using conventional methods. Analyses performed using GenBank combined with EzTaxon (kappa = 0.79) were more discriminative than those using other databases alone or in combination with a second database.

Publication types

  • Evaluation Study

MeSH terms

  • Bacteremia / diagnosis*
  • Bacteremia / microbiology*
  • Bacteria / classification*
  • Bacteria / genetics*
  • Bacteria / isolation & purification
  • Blood / microbiology*
  • Computational Biology / methods*
  • DNA, Bacterial / chemistry
  • DNA, Bacterial / genetics
  • DNA, Ribosomal / chemistry
  • DNA, Ribosomal / genetics
  • Databases, Nucleic Acid*
  • Humans
  • RNA, Ribosomal, 16S / genetics
  • Sensitivity and Specificity
  • Sequence Analysis, DNA

Substances

  • DNA, Bacterial
  • DNA, Ribosomal
  • RNA, Ribosomal, 16S