DNA assays for genetic discrimination of three Phragmites australis subspecies in the United States

PREMISE: To genetically discriminate subspecies of the common reed (Phragmites australis), we developed real‐time quantitative (qPCR) assays for identifying P. australis subsp. americanus, P. australis subsp. australis, and P. australis subsp. berlandieri. METHODS AND RESULTS: Utilizing study‐genera...

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Autores principales: Lindsay, Denise L., Guan, Xin, Harms, Nathan E., Cronin, James T., Meyerson, Laura A., Lance, Richard F.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2023
Materias:
Protocol Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10083467/
https://www.ncbi.nlm.nih.gov/pubmed/37051584
http://dx.doi.org/10.1002/aps3.11512
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author Lindsay, Denise L.
Guan, Xin
Harms, Nathan E.
Cronin, James T.
Meyerson, Laura A.
Lance, Richard F.
author_facet Lindsay, Denise L.
Guan, Xin
Harms, Nathan E.
Cronin, James T.
Meyerson, Laura A.
Lance, Richard F.
author_sort Lindsay, Denise L.
collection PubMed
description PREMISE: To genetically discriminate subspecies of the common reed (Phragmites australis), we developed real‐time quantitative (qPCR) assays for identifying P. australis subsp. americanus, P. australis subsp. australis, and P. australis subsp. berlandieri. METHODS AND RESULTS: Utilizing study‐generated chloroplast DNA sequences, we developed three novel qPCR assays. Assays were verified on individuals of each subspecies and against two non‐target species, Arundo donax and Phalaris arundinacea. One assay amplifies only P. australis subsp. americanus, one amplifies P. australis subsp. australis and/or P. australis subsp. berlandieri, and one amplifies P. australis subsp. americanus and/or P. australis subsp. australis. This protocol enhances currently available rapid identification methods by providing genetic discrimination of all three subspecies. CONCLUSIONS: The newly developed assays were validated using P. australis samples from across the United States. Application of these assays outside of this geographic range should be preceded by additional testing.
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spelling pubmed-100834672023-04-11 DNA assays for genetic discrimination of three Phragmites australis subspecies in the United States Lindsay, Denise L. Guan, Xin Harms, Nathan E. Cronin, James T. Meyerson, Laura A. Lance, Richard F. Appl Plant Sci Protocol Note PREMISE: To genetically discriminate subspecies of the common reed (Phragmites australis), we developed real‐time quantitative (qPCR) assays for identifying P. australis subsp. americanus, P. australis subsp. australis, and P. australis subsp. berlandieri. METHODS AND RESULTS: Utilizing study‐generated chloroplast DNA sequences, we developed three novel qPCR assays. Assays were verified on individuals of each subspecies and against two non‐target species, Arundo donax and Phalaris arundinacea. One assay amplifies only P. australis subsp. americanus, one amplifies P. australis subsp. australis and/or P. australis subsp. berlandieri, and one amplifies P. australis subsp. americanus and/or P. australis subsp. australis. This protocol enhances currently available rapid identification methods by providing genetic discrimination of all three subspecies. CONCLUSIONS: The newly developed assays were validated using P. australis samples from across the United States. Application of these assays outside of this geographic range should be preceded by additional testing. John Wiley and Sons Inc. 2023-03-08 /pmc/articles/PMC10083467/ /pubmed/37051584 http://dx.doi.org/10.1002/aps3.11512 Text en © 2023 The Authors. Applications in Plant Sciences published by Wiley Periodicals LLC on behalf of Botanical Society of America. This article has been contributed to by U.S. Government employees and their work is in the public domain in the USA. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Protocol Note
Lindsay, Denise L.
Guan, Xin
Harms, Nathan E.
Cronin, James T.
Meyerson, Laura A.
Lance, Richard F.
DNA assays for genetic discrimination of three Phragmites australis subspecies in the United States
title DNA assays for genetic discrimination of three Phragmites australis subspecies in the United States
title_full DNA assays for genetic discrimination of three Phragmites australis subspecies in the United States
title_fullStr DNA assays for genetic discrimination of three Phragmites australis subspecies in the United States
title_full_unstemmed DNA assays for genetic discrimination of three Phragmites australis subspecies in the United States
title_short DNA assays for genetic discrimination of three Phragmites australis subspecies in the United States
title_sort dna assays for genetic discrimination of three phragmites australis subspecies in the united states
topic Protocol Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10083467/
https://www.ncbi.nlm.nih.gov/pubmed/37051584
http://dx.doi.org/10.1002/aps3.11512
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