Analysis of microsatellites from transcriptome sequences of Phytophthora capsici and applications for population studies

Abstract Phytophthora capsici is a devastating oomycete that affects solanaceous, cucurbitaceous, fabaceous, and other crops in the United States (US) and worldwide. The release of the P. capsici genome allows for design of robust markers for genetic studies. We identified and characterized microsat...

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Autores principales:	C. H. Parada-Rojas, L. M. Quesada-Ocampo
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2018
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/a821d3c8a9294a7f9e0b62b4a07b5e53
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spelling	oai:doaj.org-article:a821d3c8a9294a7f9e0b62b4a07b5e532021-12-02T15:07:50ZAnalysis of microsatellites from transcriptome sequences of Phytophthora capsici and applications for population studies10.1038/s41598-018-23438-82045-2322https://doaj.org/article/a821d3c8a9294a7f9e0b62b4a07b5e532018-03-01T00:00:00Zhttps://doi.org/10.1038/s41598-018-23438-8https://doaj.org/toc/2045-2322Abstract Phytophthora capsici is a devastating oomycete that affects solanaceous, cucurbitaceous, fabaceous, and other crops in the United States (US) and worldwide. The release of the P. capsici genome allows for design of robust markers for genetic studies. We identified and characterized microsatellites in the P. capsici transcriptome. A subset of 50 microsatellites were assayed in a diverse set of P. capsici isolates and evaluated for polymorphism. Polymorphic microsatellites were confirmed by fragment analysis, and 12 were used for population characterization of 50 P. capsici isolates from different states, hosts, and mating types. Analysis of genetic relationship among isolates revealed significant geographic structure by state. Our findings highlight the usefulness of these 12 microsatellites to characterize the population structure of P. capsici and potential transferability to closely-related Phytophthora spp. since markers are located in coding regions. Our markers will facilitate genetic characterization and complement phenotypic studies of P. capsici populations, which may assist in deployment of disease management strategies.C. H. Parada-RojasL. M. Quesada-OcampoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 8, Iss 1, Pp 1-12 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q C. H. Parada-Rojas L. M. Quesada-Ocampo Analysis of microsatellites from transcriptome sequences of Phytophthora capsici and applications for population studies
description	Abstract Phytophthora capsici is a devastating oomycete that affects solanaceous, cucurbitaceous, fabaceous, and other crops in the United States (US) and worldwide. The release of the P. capsici genome allows for design of robust markers for genetic studies. We identified and characterized microsatellites in the P. capsici transcriptome. A subset of 50 microsatellites were assayed in a diverse set of P. capsici isolates and evaluated for polymorphism. Polymorphic microsatellites were confirmed by fragment analysis, and 12 were used for population characterization of 50 P. capsici isolates from different states, hosts, and mating types. Analysis of genetic relationship among isolates revealed significant geographic structure by state. Our findings highlight the usefulness of these 12 microsatellites to characterize the population structure of P. capsici and potential transferability to closely-related Phytophthora spp. since markers are located in coding regions. Our markers will facilitate genetic characterization and complement phenotypic studies of P. capsici populations, which may assist in deployment of disease management strategies.
format	article
author	C. H. Parada-Rojas L. M. Quesada-Ocampo
author_facet	C. H. Parada-Rojas L. M. Quesada-Ocampo
author_sort	C. H. Parada-Rojas
title	Analysis of microsatellites from transcriptome sequences of Phytophthora capsici and applications for population studies
title_short	Analysis of microsatellites from transcriptome sequences of Phytophthora capsici and applications for population studies
title_full	Analysis of microsatellites from transcriptome sequences of Phytophthora capsici and applications for population studies
title_fullStr	Analysis of microsatellites from transcriptome sequences of Phytophthora capsici and applications for population studies
title_full_unstemmed	Analysis of microsatellites from transcriptome sequences of Phytophthora capsici and applications for population studies
title_sort	analysis of microsatellites from transcriptome sequences of phytophthora capsici and applications for population studies
publisher	Nature Portfolio
publishDate	2018
url	https://doaj.org/article/a821d3c8a9294a7f9e0b62b4a07b5e53
work_keys_str_mv	AT chparadarojas analysisofmicrosatellitesfromtranscriptomesequencesofphytophthoracapsiciandapplicationsforpopulationstudies AT lmquesadaocampo analysisofmicrosatellitesfromtranscriptomesequencesofphytophthoracapsiciandapplicationsforpopulationstudies
_version_	1718388409028837376

Analysis of microsatellites from transcriptome sequences of Phytophthora capsici and applications for population studies

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