Ou, Hong Yu and Ju, C.T.S. and Thong, Kwai Lin and Ahmad, Norazah and Deng, Z.X. and Barer, Michael R. and Rajakumar, Kumar (2007) Translational Genomics to Develop a Salmonella enterica Serovar Paratyphi A Multiplex Polymerase Chain Reaction Assay. Journal of Molecular Diagnostics, 9 (5). pp. 624-630. ISSN 1525-1578, DOI https://doi.org/10.2353/jmoldx.2007.070064.
Full text not available from this repository.Abstract
The use of pathogen genome sequence data for the control and management of infections remains an ongoing challenge. We describe a broadly applicable, web-enabled approach that can be used to develop bacteria-specific polymerase chain reaction (PCR) assays. Salmonella enterica Paratyphi A has emerged as a major cause of enteric fever in Asia. Culture-based diagnosis is slow and frequently negative in patients with suspected typhoid and paratyphoid fever, potentially compromising patient management and public health. We used the MobilomeFINDER web-server to perform in silico subtractive hybridization, thus identifying 43 protein-coding sequences (CDSs) that were present in two Paratyphi A strains but not in other sequenced Salmonella genomes. After exclusion of 29 CDSs found to be variably present in Paratyphi A strains by microarray hybridization and grouping of remaining CDSs by genomic location, four dispersed targets (stkF, spa2473, spa2539, hsdM) were used to develop a highly discriminatory multiplex PCR assay. All 52 Paratyphi A strains within the diverse panel investigated produced one of two pathognomonic four-band signatures. Given rapid and ongoing expansion of DNA and comparative genomics databases, our universally accessible web-server-supported do-it-yourself approach offers the potential to contribute significantly to the rapid development of species-, serovar-, or pathotype-specific PCR assays targeting pre-existing and emerging bacterial pathogens.
| Item Type: | Article |
|---|---|
| Funders: | UNSPECIFIED |
| Uncontrolled Keywords: | Translational Genomics; Salmonella enterica Serovar Paratyphi; Multiplex Polymerase Chain Reaction Assay |
| Subjects: | Q Science > Q Science (General) Q Science > QH Natural history Q Science > QR Microbiology |
| Divisions: | Faculty of Science > Institute of Biological Sciences |
| Depositing User: | miss munirah saadom |
| Date Deposited: | 28 Dec 2012 05:15 |
| Last Modified: | 15 Oct 2018 03:16 |
| URI: | http://eprints.um.edu.my/id/eprint/5646 |
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