| Summary: | <p>Abstract</p> <p>Background</p> <p>We describe a novel application of microarray technology for comparative genomics of bacteria in which libraries of entire genomes rather than the sequence of a single genome or sets of genes are arrayed on the slide and then probed for the presence or absence of specific genes and/or gene alleles.</p> <p>Results</p> <p>We first adopted a 96-well high throughput working protocol to efficiently isolate high quality genomic DNA. We then optimized conditions to print genomic DNA onto a glass slide with high density (up to 15000 spots) and to sensitively detect gene targets in each genome spot using fluorescently labeled DNA probe. Finally, we created an <it>E. coli </it>reference collection array and probed it for the presence or absence of the hemolysin (<it>hly</it>) gene using a dual channel non-competing hybridization strategy. Results from the array hybridization matched perfectly with previous tests.</p> <p>Conclusions</p> <p>This new form of microarray technology, Library on a Slide, is an efficient way for sharing and utilizing large strain collections in comparative genomic analyses.</p>
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