Evaluating the performance of oligonucleotide microarrays for bacterial strains with increasing genetic divergence from the reference strain.

ABSTRACT: DNA oligonucleotide microarrays (oligoarrays) are being developed continuously; however, several issues regarding the applicability of these arrays for whole-genome DNA-DNA strain comparisons (genomotyping) have not been investigated. For example, the extent of false negatives (i.e., no hybridization signal is observed when the amino acid sequence is conserved but the nucleotide sequence has diverged to a level that does not allow hybridization) remains speculative. To provide quantitative answers to such questions, we performed competitive DNA-DNA oligoarray (60-mer) hybridizations with several fully sequenced (tester) strains and a reference strain (whose genome was used to design the oligoarray probes) of the genus Burkholderia and compared the experimental results obtained to the resul

SUBMITTER: Oh S 

PROVIDER: S-EPMC2863436 | biostudies-literature | 2010 May

REPOSITORIES: biostudies-literature