Development of LAMP-HRM for sensitive and specific detection of Phytophthora infestans

Nowicki, Marcin; Nowakowska, Marzena; Wrzesińska, Małgorzata; Kozik, E.

doi:10.14293/p2199-8442.1.sop-ag.pzxdwn.v1

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“…gSSR tested this way. This feature of our gSSRs encourages their use toward pathogen detection, especially when coupling the PCR with the high-resolution melting analysis (Nowicki et al, 2015;Summers et al, 2015a;Lee et al, 2016;Rahman et al, 2019;Stackhouse, 2019). Finally, several gSSRs that successfully amplified in the initial tests of 22 specimens from both taxa across the 23 gSSRs were not found in the current draft genomes, which argues for the continued efforts toward improved genomic resources of the downy mildew pathogens.…”

Section: Discussionmentioning

confidence: 99%

“Jumping Jack”: Genomic Microsatellites Underscore the Distinctiveness of Closely Related Pseudoperonospora cubensis and Pseudoperonospora humuli and Provide New Insights Into Their Evolutionary Past

et al. 2021

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Downy mildews caused by obligate biotrophic oomycetes result in severe crop losses worldwide. Among these pathogens, Pseudoperonospora cubensis and P. humuli, two closely related oomycetes, adversely affect cucurbits and hop, respectively. Discordant hypotheses concerning their taxonomic relationships have been proposed based on host–pathogen interactions and specificity evidence and gene sequences of a few individuals, but population genetics evidence supporting these scenarios is missing. Furthermore, nuclear and mitochondrial regions of both pathogens have been analyzed using microsatellites and phylogenetically informative molecular markers, but extensive comparative population genetics research has not been done. Here, we genotyped 138 current and historical herbarium specimens of those two taxa using microsatellites (SSRs). Our goals were to assess genetic diversity and spatial distribution, to infer the evolutionary history of P. cubensis and P. humuli, and to visualize genome-scale organizational relationship between both pathogens. High genetic diversity, modest gene flow, and presence of population structure, particularly in P. cubensis, were observed. When tested for cross-amplification, 20 out of 27 P. cubensis-derived gSSRs cross-amplified DNA of P. humuli individuals, but few amplified DNA of downy mildew pathogens from related genera. Collectively, our analyses provided a definite argument for the hypothesis that both pathogens are distinct species, and suggested further speciation in the P. cubensis complex.

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Section: Discussionmentioning

confidence: 99%

“Jumping Jack”: Genomic Microsatellites Underscore the Distinctiveness of Closely Related Pseudoperonospora cubensis and Pseudoperonospora humuli and Provide New Insights Into Their Evolutionary Past

et al. 2021

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Development of LAMP-HRM for sensitive and specific detection of Phytophthora infestans

Abstract: We developed the LAMP-HRM assay for detection of P. infestans in a RealTime PCR machine.

Cited by 1 publication

References 3 publications

“Jumping Jack”: Genomic Microsatellites Underscore the Distinctiveness of Closely Related Pseudoperonospora cubensis and Pseudoperonospora humuli and Provide New Insights Into Their Evolutionary Past

“Jumping Jack”: Genomic Microsatellites Underscore the Distinctiveness of Closely Related Pseudoperonospora cubensis and Pseudoperonospora humuli and Provide New Insights Into Their Evolutionary Past

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