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EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski

Psathyrostachys juncea is a perennial forage grass which plays an important role in soil and water conservation and ecological maintenance in cold and dry areas of temperate regions. In P. juncea, a variety of biotic and abiotic stress related genes have been used in crop improvement, indicating its...

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Autores principales: Li, Zhen, Yun, Lan, Gao, Zhiqi, Wang, Tian, Ren, Xiaomin, Zhao, Yan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8919075/
https://www.ncbi.nlm.nih.gov/pubmed/35295628
http://dx.doi.org/10.3389/fpls.2022.837787
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author Li, Zhen
Yun, Lan
Gao, Zhiqi
Wang, Tian
Ren, Xiaomin
Zhao, Yan
author_facet Li, Zhen
Yun, Lan
Gao, Zhiqi
Wang, Tian
Ren, Xiaomin
Zhao, Yan
author_sort Li, Zhen
collection PubMed
description Psathyrostachys juncea is a perennial forage grass which plays an important role in soil and water conservation and ecological maintenance in cold and dry areas of temperate regions. In P. juncea, a variety of biotic and abiotic stress related genes have been used in crop improvement, indicating its agronomic, economic, forage, and breeding value. To date, there have been few studies on the genetic structure of P. juncea. Here, the genetic diversity and population structure of P. juncea were analyzed by EST-SSR molecular markers to evaluate the genetic differentiation related to tillering traits in P. juncea germplasm resources. The results showed that 400 simple sequence repeat (SSR) loci were detected in 2,020 differentially expressed tillering related genes. A total of 344 scored bands were amplified using 103 primer pairs, out of which 308 (89.53%) were polymorphic. The Nei’s gene diversity of 480 individuals was between 0.092 and 0.449, and the genetic similarity coefficient was between 0.5008 and 0.9111, with an average of 0.6618. Analysis of molecular variance analysis showed that 93% of the variance was due to differences within the population, and the remaining 7% was due to differences among populations. Psathyrostachys juncea materials were clustered into five groups based on population genetic structure, principal coordinate analysis and unweighted pair-group method with arithmetic means (UPGMA) analysis. The results were similar between clustering methods, but a few individual plants were distributed differently by the three models. The clustering results, gene diversity and genetic similarity coefficients showed that the overall genetic relationship of P. juncea individuals was relatively close. A Mantel test, UPGMA and structural analysis also showed a significant correlation between genetic relationship and geographical distribution. These results provide references for future breeding programs, genetic improvement and core germplasm collection of P. juncea.
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spelling pubmed-89190752022-03-15 EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski Li, Zhen Yun, Lan Gao, Zhiqi Wang, Tian Ren, Xiaomin Zhao, Yan Front Plant Sci Plant Science Psathyrostachys juncea is a perennial forage grass which plays an important role in soil and water conservation and ecological maintenance in cold and dry areas of temperate regions. In P. juncea, a variety of biotic and abiotic stress related genes have been used in crop improvement, indicating its agronomic, economic, forage, and breeding value. To date, there have been few studies on the genetic structure of P. juncea. Here, the genetic diversity and population structure of P. juncea were analyzed by EST-SSR molecular markers to evaluate the genetic differentiation related to tillering traits in P. juncea germplasm resources. The results showed that 400 simple sequence repeat (SSR) loci were detected in 2,020 differentially expressed tillering related genes. A total of 344 scored bands were amplified using 103 primer pairs, out of which 308 (89.53%) were polymorphic. The Nei’s gene diversity of 480 individuals was between 0.092 and 0.449, and the genetic similarity coefficient was between 0.5008 and 0.9111, with an average of 0.6618. Analysis of molecular variance analysis showed that 93% of the variance was due to differences within the population, and the remaining 7% was due to differences among populations. Psathyrostachys juncea materials were clustered into five groups based on population genetic structure, principal coordinate analysis and unweighted pair-group method with arithmetic means (UPGMA) analysis. The results were similar between clustering methods, but a few individual plants were distributed differently by the three models. The clustering results, gene diversity and genetic similarity coefficients showed that the overall genetic relationship of P. juncea individuals was relatively close. A Mantel test, UPGMA and structural analysis also showed a significant correlation between genetic relationship and geographical distribution. These results provide references for future breeding programs, genetic improvement and core germplasm collection of P. juncea. Frontiers Media S.A. 2022-02-28 /pmc/articles/PMC8919075/ /pubmed/35295628 http://dx.doi.org/10.3389/fpls.2022.837787 Text en Copyright © 2022 Li, Yun, Gao, Wang, Ren and Zhao. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Plant Science
Li, Zhen
Yun, Lan
Gao, Zhiqi
Wang, Tian
Ren, Xiaomin
Zhao, Yan
EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski
title EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski
title_full EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski
title_fullStr EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski
title_full_unstemmed EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski
title_short EST-SSR Primer Development and Genetic Structure Analysis of Psathyrostachys juncea Nevski
title_sort est-ssr primer development and genetic structure analysis of psathyrostachys juncea nevski
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8919075/
https://www.ncbi.nlm.nih.gov/pubmed/35295628
http://dx.doi.org/10.3389/fpls.2022.837787
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