Defining reference sequences for Nocardia species by similarity and clustering analyses of 16S rRNA gene sequence data.

ABSTRACT:

Background

The intra- and inter-species genetic diversity of bacteria and the absence of 'reference', or the most representative, sequences of individual species present a significant challenge for sequence-based identification. The aims of this study were to determine the utility, and compare the performance of several clustering and classification algorithms to identify the species of 364 sequences of 16S rRNA gene with a defined species in GenBank, and 110 sequences of 16S rRNA gene with no defined species, all within the genus Nocardia.

Methods

A total of 364 16S rRNA gene sequences of Nocardia species were studied. In addition, 110 16S rRNA gene sequences assigned only to the Nocardia genus level at the time of submission to GenBank were used for machine learning classi

SUBMITTER: Helal M 

PROVIDER: S-EPMC3110597 | biostudies-literature | 2011

REPOSITORIES: biostudies-literature