Detection and identification ofEscherichia coli, Shigella,andSalmonellaby microarrays using thegyrBgene

• DOI: 10.1002/bit.10709
• Publication Date: 2003-07-25T10:12:55Z
• Authors: Kenichi Kakinuma; Masao Fukushima; Ryuji Kawaguchi
• Keywords: DNA, Bacterial; 0303 health sciences; Base Sequence; Molecular Sequence Data; 3. Good health; 03 medical and health sciences; DNA Gyrase; Genes, Bacterial; Salmonella; RNA, Ribosomal, 16S; Escherichia coli; Shigella; Oligonucleotide Array Sequence Analysis

AbstractCommonly, 16S ribosome RNA (16S rRNA) sequence analysis has been used for identifying enteric bacteria. However, it may not always be applicable for distinguishing closely related bacteria. Therefore, we selectedgyrBgenes that encode the subunit B protein of DNA gyrase (a topoisomerase type II protein) as target genes. The molecular evolution rate ofgyrBgenes is higher than that of 16S rRNA, andgyrBgenes are distributed universally among bacterial species. Microarray technology includes the methods of arraying cDNA or oligonucleotides on substrates such as glass slides while acquiring a lot of information simultaneously. Thus, it is possible to identify the enteric bacteria easily using microarray technology. We devised a simple method of rapidly identifying bacterial species through the combined use ofgyrBgenes and microarrays. Closely related bacteria were not identified at the species level using 16S rRNA sequence analysis, whereas they were identified at the species level based on the reaction patterns of oligonucleotides on our microarrays usinggyrBgenes. © 2003 Wiley Periodicals, Inc. Biotechnol Bioeng 83: 721–728, 2003.