Rapid quantification and taxonomic classification of environmentalDNA from both prokaryotic and eukaryotic origins using a microarray
A microarray has been designed using 62,358 probes matched to both prokaryotic and eukaryotic small-subunit ribosomal RNA genes. The array categorized environmental DNA to specific phylogenetic clusters in under 9 h. To a background of DNA generated from natural outdoor aerosols, known quantities of rRNA gene copies from distinct organisms were added producing corresponding hybridization intensity scores that correlated well with their concentrations (r=0.917). Reproducible differences in microbial community composition were observed by altering the genomic DNA extraction method. Notably, gentle extractions produced peak intensities for Mycoplasmatales and Burkholderiales, whereas a vigorous disruption produced peak intensities for Vibrionales,Clostridiales, and Bacillales.
- Research Organization:
- Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
- Sponsoring Organization:
- USDOE Director. Office of Science. Chemical and BiologicalNational Security Program NN-22. Department of Energy and HazardousMaterials Response Unit of the FBI Work
- DOE Contract Number:
- DE-AC02-05CH11231
- OSTI ID:
- 862074
- Report Number(s):
- LBNL-57331; FMLED7; R&D Project: G4W049; BnR: 400403209; TRN: US200601%%311
- Journal Information:
- FEMS Microbiology Letters, Vol. 245, Issue 2; Related Information: Journal Publication Date: 04/15/2005; ISSN 0378-1097
- Country of Publication:
- United States
- Language:
- English
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