Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea

Abstract Sterility mosaic disease (SMD) is one of the serious production constraints that may lead to complete yield loss in pigeonpea. Three mapping populations including two recombinant inbred lines and one F2, were used for phenotyping for SMD resistance at two locations in three different years....

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Autores principales:	Rachit K. Saxena, Sandip M. Kale, Vinay Kumar, Swathi Parupali, Shourabh Joshi, Vikas Singh, Vanika Garg, Roma R. Das, Mamta Sharma, K. N. Yamini, Anuradha Ghanta, Abhishek Rathore, C. V. Sameerkumar, K. B. Saxena, Rajeev K. Varshney
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Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/0c106b14714749088855bc3398e36d74
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spelling	oai:doaj.org-article:0c106b14714749088855bc3398e36d742021-12-02T16:06:39ZGenotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea10.1038/s41598-017-01535-42045-2322https://doaj.org/article/0c106b14714749088855bc3398e36d742017-05-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-01535-4https://doaj.org/toc/2045-2322Abstract Sterility mosaic disease (SMD) is one of the serious production constraints that may lead to complete yield loss in pigeonpea. Three mapping populations including two recombinant inbred lines and one F2, were used for phenotyping for SMD resistance at two locations in three different years. Genotyping-by-sequencing approach was used for simultaneous identification and genotyping of SNPs on above mentioned populations. In total, 212,464, 89,699 and 64,798 SNPs were identified in ICPL 20096 × ICPL 332 (PRIL_B), ICPL 20097 × ICP 8863 (PRIL_C) and ICP 8863 × ICPL 87119 (F2) respectively. By using high-quality SNPs, genetic maps were developed for PRIL_B (1,101 SNPs; 921.21 cM), PRIL_C (484 SNPs; 798.25 cM) and F2 (996 SNPs; 1,597.30 cM) populations. The average inter marker distance on these maps varied from 0.84 cM to 1.65 cM, which was lowest in all genetic mapping studies in pigeonpea. Composite interval mapping based QTL analysis identified a total of 10 QTLs including three major QTLs across the three populations. The phenotypic variance of the identified QTLs ranged from 3.6 to 34.3%. One candidate genomic region identified on CcLG11 seems to be promising QTL for molecular breeding in developing superior lines with enhanced resistance to SMD.Rachit K. SaxenaSandip M. KaleVinay KumarSwathi ParupaliShourabh JoshiVikas SinghVanika GargRoma R. DasMamta SharmaK. N. YaminiAnuradha GhantaAbhishek RathoreC. V. SameerkumarK. B. SaxenaRajeev K. VarshneyNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-10 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Rachit K. Saxena Sandip M. Kale Vinay Kumar Swathi Parupali Shourabh Joshi Vikas Singh Vanika Garg Roma R. Das Mamta Sharma K. N. Yamini Anuradha Ghanta Abhishek Rathore C. V. Sameerkumar K. B. Saxena Rajeev K. Varshney Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea
description	Abstract Sterility mosaic disease (SMD) is one of the serious production constraints that may lead to complete yield loss in pigeonpea. Three mapping populations including two recombinant inbred lines and one F2, were used for phenotyping for SMD resistance at two locations in three different years. Genotyping-by-sequencing approach was used for simultaneous identification and genotyping of SNPs on above mentioned populations. In total, 212,464, 89,699 and 64,798 SNPs were identified in ICPL 20096 × ICPL 332 (PRIL_B), ICPL 20097 × ICP 8863 (PRIL_C) and ICP 8863 × ICPL 87119 (F2) respectively. By using high-quality SNPs, genetic maps were developed for PRIL_B (1,101 SNPs; 921.21 cM), PRIL_C (484 SNPs; 798.25 cM) and F2 (996 SNPs; 1,597.30 cM) populations. The average inter marker distance on these maps varied from 0.84 cM to 1.65 cM, which was lowest in all genetic mapping studies in pigeonpea. Composite interval mapping based QTL analysis identified a total of 10 QTLs including three major QTLs across the three populations. The phenotypic variance of the identified QTLs ranged from 3.6 to 34.3%. One candidate genomic region identified on CcLG11 seems to be promising QTL for molecular breeding in developing superior lines with enhanced resistance to SMD.
format	article
author	Rachit K. Saxena Sandip M. Kale Vinay Kumar Swathi Parupali Shourabh Joshi Vikas Singh Vanika Garg Roma R. Das Mamta Sharma K. N. Yamini Anuradha Ghanta Abhishek Rathore C. V. Sameerkumar K. B. Saxena Rajeev K. Varshney
author_facet	Rachit K. Saxena Sandip M. Kale Vinay Kumar Swathi Parupali Shourabh Joshi Vikas Singh Vanika Garg Roma R. Das Mamta Sharma K. N. Yamini Anuradha Ghanta Abhishek Rathore C. V. Sameerkumar K. B. Saxena Rajeev K. Varshney
author_sort	Rachit K. Saxena
title	Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea
title_short	Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea
title_full	Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea
title_fullStr	Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea
title_full_unstemmed	Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea
title_sort	genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/0c106b14714749088855bc3398e36d74
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Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea

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