Comparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.

The major limiting factor for production and productivity of finger millet crop is blast disease caused by Magnaporthe grisea. Since, the genome sequence information available in finger millet crop is scarce, comparative genomics plays a very important role in identification of genes/QTLs linked to...

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Autores principales:	B Kalyana Babu, Pandey Dinesh, Pawan K Agrawal, S Sood, C Chandrashekara, Jagadish C Bhatt, Anil Kumar
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2014
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/ddefef85a2e64896a27b5acdc6975c3e
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spelling	oai:doaj.org-article:ddefef85a2e64896a27b5acdc6975c3e2021-11-18T08:16:21ZComparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.1932-620310.1371/journal.pone.0099182https://doaj.org/article/ddefef85a2e64896a27b5acdc6975c3e2014-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/24915067/?tool=EBIhttps://doaj.org/toc/1932-6203The major limiting factor for production and productivity of finger millet crop is blast disease caused by Magnaporthe grisea. Since, the genome sequence information available in finger millet crop is scarce, comparative genomics plays a very important role in identification of genes/QTLs linked to the blast resistance genes using SSR markers. In the present study, a total of 58 genic SSRs were developed for use in genetic analysis of a global collection of 190 finger millet genotypes. The 58 SSRs yielded ninety five scorable alleles and the polymorphism information content varied from 0.186 to 0.677 at an average of 0.385. The gene diversity was in the range of 0.208 to 0.726 with an average of 0.487. Association mapping for blast resistance was done using 104 SSR markers which identified four QTLs for finger blast and one QTL for neck blast resistance. The genomic marker RM262 and genic marker FMBLEST32 were linked to finger blast disease at a P value of 0.007 and explained phenotypic variance (R²) of 10% and 8% respectively. The genomic marker UGEP81 was associated to finger blast at a P value of 0.009 and explained 7.5% of R². The QTLs for neck blast was associated with the genomic SSR marker UGEP18 at a P value of 0.01, which explained 11% of R². Three QTLs for blast resistance were found common by using both GLM and MLM approaches. The resistant alleles were found to be present mostly in the exotic genotypes. Among the genotypes of NW Himalayan region of India, VHC3997, VHC3996 and VHC3930 were found highly resistant, which may be effectively used as parents for developing blast resistant cultivars in the NW Himalayan region of India. The markers linked to the QTLs for blast resistance in the present study can be further used for cloning of the full length gene, fine mapping and their further use in the marker assisted breeding programmes for introgression of blast resistant alleles into locally adapted cultivars.B Kalyana BabuPandey DineshPawan K AgrawalS SoodC ChandrashekaraJagadish C BhattAnil KumarPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 9, Iss 6, p e99182 (2014)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q B Kalyana Babu Pandey Dinesh Pawan K Agrawal S Sood C Chandrashekara Jagadish C Bhatt Anil Kumar Comparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.
description	The major limiting factor for production and productivity of finger millet crop is blast disease caused by Magnaporthe grisea. Since, the genome sequence information available in finger millet crop is scarce, comparative genomics plays a very important role in identification of genes/QTLs linked to the blast resistance genes using SSR markers. In the present study, a total of 58 genic SSRs were developed for use in genetic analysis of a global collection of 190 finger millet genotypes. The 58 SSRs yielded ninety five scorable alleles and the polymorphism information content varied from 0.186 to 0.677 at an average of 0.385. The gene diversity was in the range of 0.208 to 0.726 with an average of 0.487. Association mapping for blast resistance was done using 104 SSR markers which identified four QTLs for finger blast and one QTL for neck blast resistance. The genomic marker RM262 and genic marker FMBLEST32 were linked to finger blast disease at a P value of 0.007 and explained phenotypic variance (R²) of 10% and 8% respectively. The genomic marker UGEP81 was associated to finger blast at a P value of 0.009 and explained 7.5% of R². The QTLs for neck blast was associated with the genomic SSR marker UGEP18 at a P value of 0.01, which explained 11% of R². Three QTLs for blast resistance were found common by using both GLM and MLM approaches. The resistant alleles were found to be present mostly in the exotic genotypes. Among the genotypes of NW Himalayan region of India, VHC3997, VHC3996 and VHC3930 were found highly resistant, which may be effectively used as parents for developing blast resistant cultivars in the NW Himalayan region of India. The markers linked to the QTLs for blast resistance in the present study can be further used for cloning of the full length gene, fine mapping and their further use in the marker assisted breeding programmes for introgression of blast resistant alleles into locally adapted cultivars.
format	article
author	B Kalyana Babu Pandey Dinesh Pawan K Agrawal S Sood C Chandrashekara Jagadish C Bhatt Anil Kumar
author_facet	B Kalyana Babu Pandey Dinesh Pawan K Agrawal S Sood C Chandrashekara Jagadish C Bhatt Anil Kumar
author_sort	B Kalyana Babu
title	Comparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.
title_short	Comparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.
title_full	Comparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.
title_fullStr	Comparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.
title_full_unstemmed	Comparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.
title_sort	comparative genomics and association mapping approaches for blast resistant genes in finger millet using ssrs.
publisher	Public Library of Science (PLoS)
publishDate	2014
url	https://doaj.org/article/ddefef85a2e64896a27b5acdc6975c3e
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Comparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.

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