Comparative genomics-guided loop-mediated isothermal amplification for characterization of Pseudomonas syringae pv. phaseolicola

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Comparative genomics-guided loop-mediated isothermal amplification for characterization of Pseudomonas syringae pv. phaseolicola

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dc.contributor.author Li, X.
dc.contributor.author Nie, J.
dc.contributor.author Ward, L.
dc.contributor.author Madani, M.
dc.contributor.author Hsiang, T.
dc.contributor.author Zhao, Y.
dc.contributor.author De Boer, S.H.
dc.date.accessioned 2010-12-27T17:47:33Z
dc.date.available 2010-12-27T17:47:33Z
dc.date.issued 2008-12-13
dc.identifier.citation Li, X., Nie, J., Ward, L., Madani, M., Hsiang, T., Zhao, Y., and De Boer, S.H. "Comparative genomics-guided loop-mediated isothermal amplification for characterization of Pseudomonas syringae pv. phaseolicola." Journal of Applied Microbiology 107.3 (2009): 717-736
dc.identifier.issn 1364-5072
dc.identifier.uri http://hdl.handle.net/10214/2382
dc.description.abstract Aims: To design and evaluate a loop-mediated isothermal amplification(LAMP) protocol by combining comparative genomics and bioinformatics for characterization of Pseudomonas syringae pv. phaseolicola (PSP), the causal agent of halo blight disease of bean (Phaseolus vulgaris L.). Methods and Results: Genomic sequences of Pseudomonas syringae pathovars, P. fluorescens and P. aeruginosa were analysed using multiple sequence alignment. A pathovar-specific region encoding pathogenicity-related secondary metabolites in the PSP genome was targeted for developing a LAMP assay. The final assay targeted a polyketide synthase gene, and readily differentiated PSP strains from other Pseudomonas syringae pathovars and other Pseudomonas species, as well as other plant pathogenic bacteria, e.g. species of Pectobacterium, Erwinia and Pantoea. Conclusion: A LAMP assay has been developed for rapid and specific characterization and identification of PSP from other pathovars of P. syringae and other plant-associated bacteria. Significance and Impact of the Study: This paper describes an approach combining a bioinformatic data mining strategy and comparative genomics with the LAMP technology for characterization and identification of a plant pathogenic bacterium. The LAMP assay could serve as a rapid protocol for microbial identification and detection with significant applications in agriculture and environmental sciences.
dc.language.iso en en_US
dc.publisher Journal of Applied Microbiology en_US
dc.subject characterization; comparative genomics; detaction; en_US
dc.subject loop mediated isothermal amplification en_US
dc.subject Pseudomonas syringae pv. phaseolicola en_US
dc.title Comparative genomics-guided loop-mediated isothermal amplification for characterization of Pseudomonas syringae pv. phaseolicola en_US
dc.type Article en_US


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