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United States Department of Agriculture

Agricultural Research Service

Title: Multiplex real-time PCR for detection, identification and quantification of ‘Candidatus Liberibacter solanacearum’ in potato plants with zebra chip

item Li, Wenbin
item Abad, Jorge
item French-monar, Ronald
item Rascoe, John
item Wen, Aimen
item Gudmestad, Neil
item Secor, Gary
item Lee, Ing Ming
item Duan, Ping
item Levy, Laurene

Submitted to: Journal of Microbiological Methods
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 3/10/2009
Publication Date: 5/4/2009
Citation: Li, W., Abad, J.A., French-Monar, R.D., Rascoe, J., Wen, A., Gudmestad, N.C., Secor, G.A., Lee, I., Duan, Y., Levy, L. 2009. Multiplex real-time PCR for detection, identification and quantification of ‘Candidatus Liberibacter solanacearum’ in potato plants with zebra chip. Journal of Microbiological Methods. 78:59-65.

Interpretive Summary:

Technical Abstract: The new Liberibacter species, ‘Candidatus Liberibacter solanacearum’ (Lso) recently associated with potato/tomato psyllid-transmitted diseases in tomato and capsicum in New Zealand, was found to be consistently associated with a newly emerging potato zebra chip (ZC) disease in Texas and other southwestern states in the USA. A species-specific primer LsoF was developed for both quantitative real-time PCR (qPCR) and conventional PCR (cPCR) to detect and quantify Lso in infected samples. In multiplex qPCR, a plant cytochrome oxidase (COX)-based probe-primer set was used as a positive internal control for host plants, which could be used to reliably access the DNA extraction quality and to normalize qPCR data for accurate quantification of the bacterial populations in environment samples. Neither the qPCR nor the cPCR using the primer and/or probe sets with LsoF reacted with other Liberibacter species infecting citrus or other potato pathogens. The low detection limit of the multiplex qPCR was about 20 copies of the target 16S rDNA templates per reaction for field samples. Lso was readily detected and quantified in various tissues of ZC-affected potato plants collected from fields in Texas. A thorough but uneven colonization of Lso was revealed in various tissues of potato plants. The highest Lso populations were about 3 x 108 genomes/g tissue in the root, which were 3-order higher than those in the above-ground tissues of potato plants. The Lso bacterial populations were normally distributed across the ZC-affected potato plants collected from fields in Texas, with 60% of ZC-affected potato plants harboring an average Lso population from 105 to 106 genomes/g tissue, 4% of plants hosting above 107 Lso genomes/g tissue, and 8% of plants holding below 103 Lso genomes/g tissue. The rapid, sensitive, specific and reliable multiplex qPCR showed its potential to become a powerful tool for early detection and quantification of the new Liberibacter species associated with potato ZC, and will be very useful for the potato quarantine programs and seed potato certification programs to ensure the availability of clean seed potato stocks and also for epidemiological studies on the disease.

Last Modified: 06/26/2017
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