Sequence versus structure for the direct detection of 16S rRNA on planar oligonucleotide microarrays.

ABSTRACT: A two-probe proximal chaperone detection system consisting of a species-specific capture probe for the microarray and a labeled, proximal chaperone probe for detection was recently described for direct detection of intact rRNAs from environmental samples on oligonucleotide arrays. In this study, we investigated the physical spacing and nucleotide mismatch tolerance between capture and proximal chaperone detector probes that are required to achieve species-specific 16S rRNA detection for the dissimilatory metal and sulfate reducer 16S rRNAs. Microarray specificity was deduced by analyzing signal intensities across replicate microarrays with a statistical analysis-of-variance model that accommodates well-to-well and slide-to-slide variations in microarray signal intensity. Chaperone detector

SUBMITTER: Chandler DP 

PROVIDER: S-EPMC154527 | biostudies-literature | 2003 May

REPOSITORIES: biostudies-literature