Development of a genomics-based LAMP (Loop-Mediated Isothermal Amplification) Assay for Detection of Pseudomonas fuscovaginae from Rice

Gavin Ash, Jillian M Lang, Lindsay R Triplett, Benjamin Stodart, Valerie Verdier, Casiana Vera Cruz, Philippe Rott, Jan E Leach

Research output: Contribution to journalArticle

22 Citations (Scopus)

Abstract

The vast amount of data available through next-generation sequencing technology is facilitating the design of diagnostic marker systems. This study reports the use of draft genome sequences from the bacterial plant pathogen Pseudomonas fuscovaginae, the cause of sheath brown rot of rice, to describe the genetic diversity within a worldwide collection of strains representing the species. Based on a comparative analysis with the draft sequences, primers for a loop-mediated isothermal amplification (LAMP) assay were developed to identify P. fuscovaginae. The assay reported here reliably differentiated strains of P. fuscovaginae isolated from rice from a range of other bacteria that are commonly isolated from rice and other plants using a primer combination designated Pf8. The LAMP assay identified P. fuscovaginae purified DNA, live or heat-killed cells from pure cultures, and detected the bacterium in extracts or exudates from infected host plant material. The P. fuscovaginae LAMP assay is a suitable diagnostic tool for the glasshouse and laboratory and could be further developed for in-field surveys.
Original languageEnglish
Pages (from-to)909-915
Number of pages7
JournalPlant Disease
Volume98
Issue numberJuly
DOIs
Publication statusPublished - 2014

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Pseudomonas fuscovaginae
genomics
rice
assays
bacteria
plant pathogens
host plants
loop-mediated isothermal amplification
greenhouses
heat
genetic variation
genome
extracts
DNA

Cite this

Ash, Gavin ; Lang, Jillian M ; Triplett, Lindsay R ; Stodart, Benjamin ; Verdier, Valerie ; Vera Cruz, Casiana ; Rott, Philippe ; Leach, Jan E. / Development of a genomics-based LAMP (Loop-Mediated Isothermal Amplification) Assay for Detection of Pseudomonas fuscovaginae from Rice. In: Plant Disease. 2014 ; Vol. 98, No. July. pp. 909-915.
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Development of a genomics-based LAMP (Loop-Mediated Isothermal Amplification) Assay for Detection of Pseudomonas fuscovaginae from Rice. / Ash, Gavin; Lang, Jillian M; Triplett, Lindsay R; Stodart, Benjamin; Verdier, Valerie; Vera Cruz, Casiana; Rott, Philippe; Leach, Jan E.

In: Plant Disease, Vol. 98, No. July, 2014, p. 909-915.

Research output: Contribution to journalArticle

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