Development and characterization of polymorphic EST-SSR and genomic SSR markers for Tibetan annual wild barley.

Tibetan annual wild barley is rich in genetic variation. This study was aimed at the exploitation of new SSRs for the genetic diversity and phylogenetic analysis of wild barley by data mining. We developed 49 novel EST-SSRs and confirmed 20 genomic SSRs for 80 Tibetan annual wild barley and 16 culti...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Mian Zhang, Weihua Mao, Guoping Zhang, Feibo Wu
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2014
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/81268995a65a44c196e0738e3ff14602
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:81268995a65a44c196e0738e3ff14602
record_format	dspace
spelling	oai:doaj.org-article:81268995a65a44c196e0738e3ff146022021-11-18T08:23:16ZDevelopment and characterization of polymorphic EST-SSR and genomic SSR markers for Tibetan annual wild barley.1932-620310.1371/journal.pone.0094881https://doaj.org/article/81268995a65a44c196e0738e3ff146022014-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/24736399/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203Tibetan annual wild barley is rich in genetic variation. This study was aimed at the exploitation of new SSRs for the genetic diversity and phylogenetic analysis of wild barley by data mining. We developed 49 novel EST-SSRs and confirmed 20 genomic SSRs for 80 Tibetan annual wild barley and 16 cultivated barley accessions. A total of 213 alleles were generated from 69 loci with an average of 3.14 alleles per locus. The trimeric repeats were the most abundant motifs (40.82%) among the EST-SSRs, while the majority of the genomic SSRs were di-nuleotide repeats. The polymorphic information content (PIC) ranged from 0.08 to 0.75 with a mean of 0.46. Besides this, the expected heterozygosity (He) ranged from 0.0854 to 0.7842 with an average of 0.5279. Overall, the polymorphism of genomic SSRs was higher than that of EST-SSRs. Furthermore, the number of alleles and the PIC of wild barley were both higher than that of cultivated barley, being 3.12 vs 2.59 and 0.44 vs 0.37. Indicating more polymorphism existed in the Tibetan wild barley than in cultivated barley. The 96 accessions were divided into eight subpopulations based on 69 SSR markers, and the cultivated genotypes can be clearly separated from wild barleys. A total of 47 SSR-containing EST unigenes showed significant similarities to the known genes. These EST-SSR markers have potential for application in germplasm appraisal, genetic diversity and population structure analysis, facilitating marker-assisted breeding and crop improvement in barley.Mian ZhangWeihua MaoGuoping ZhangFeibo WuPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 9, Iss 4, p e94881 (2014)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Mian Zhang Weihua Mao Guoping Zhang Feibo Wu Development and characterization of polymorphic EST-SSR and genomic SSR markers for Tibetan annual wild barley.
description	Tibetan annual wild barley is rich in genetic variation. This study was aimed at the exploitation of new SSRs for the genetic diversity and phylogenetic analysis of wild barley by data mining. We developed 49 novel EST-SSRs and confirmed 20 genomic SSRs for 80 Tibetan annual wild barley and 16 cultivated barley accessions. A total of 213 alleles were generated from 69 loci with an average of 3.14 alleles per locus. The trimeric repeats were the most abundant motifs (40.82%) among the EST-SSRs, while the majority of the genomic SSRs were di-nuleotide repeats. The polymorphic information content (PIC) ranged from 0.08 to 0.75 with a mean of 0.46. Besides this, the expected heterozygosity (He) ranged from 0.0854 to 0.7842 with an average of 0.5279. Overall, the polymorphism of genomic SSRs was higher than that of EST-SSRs. Furthermore, the number of alleles and the PIC of wild barley were both higher than that of cultivated barley, being 3.12 vs 2.59 and 0.44 vs 0.37. Indicating more polymorphism existed in the Tibetan wild barley than in cultivated barley. The 96 accessions were divided into eight subpopulations based on 69 SSR markers, and the cultivated genotypes can be clearly separated from wild barleys. A total of 47 SSR-containing EST unigenes showed significant similarities to the known genes. These EST-SSR markers have potential for application in germplasm appraisal, genetic diversity and population structure analysis, facilitating marker-assisted breeding and crop improvement in barley.
format	article
author	Mian Zhang Weihua Mao Guoping Zhang Feibo Wu
author_facet	Mian Zhang Weihua Mao Guoping Zhang Feibo Wu
author_sort	Mian Zhang
title	Development and characterization of polymorphic EST-SSR and genomic SSR markers for Tibetan annual wild barley.
title_short	Development and characterization of polymorphic EST-SSR and genomic SSR markers for Tibetan annual wild barley.
title_full	Development and characterization of polymorphic EST-SSR and genomic SSR markers for Tibetan annual wild barley.
title_fullStr	Development and characterization of polymorphic EST-SSR and genomic SSR markers for Tibetan annual wild barley.
title_full_unstemmed	Development and characterization of polymorphic EST-SSR and genomic SSR markers for Tibetan annual wild barley.
title_sort	development and characterization of polymorphic est-ssr and genomic ssr markers for tibetan annual wild barley.
publisher	Public Library of Science (PLoS)
publishDate	2014
url	https://doaj.org/article/81268995a65a44c196e0738e3ff14602
work_keys_str_mv	AT mianzhang developmentandcharacterizationofpolymorphicestssrandgenomicssrmarkersfortibetanannualwildbarley AT weihuamao developmentandcharacterizationofpolymorphicestssrandgenomicssrmarkersfortibetanannualwildbarley AT guopingzhang developmentandcharacterizationofpolymorphicestssrandgenomicssrmarkersfortibetanannualwildbarley AT feibowu developmentandcharacterizationofpolymorphicestssrandgenomicssrmarkersfortibetanannualwildbarley
_version_	1718421869490601984

Development and characterization of polymorphic EST-SSR and genomic SSR markers for Tibetan annual wild barley.

Ejemplares similares