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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

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 F(2), were used for phenotyping for SMD resistance at two locations in three different years. Genoty...

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Autores principales: Saxena, Rachit K., Kale, Sandip M., Kumar, Vinay, Parupali, Swathi, Joshi, Shourabh, Singh, Vikas, Garg, Vanika, Das, Roma R., Sharma, Mamta, Yamini, K. N., Ghanta, Anuradha, Rathore, Abhishek, Sameerkumar, C. V., Saxena, K. B., Varshney, Rajeev K.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5431754/
https://www.ncbi.nlm.nih.gov/pubmed/28500330
http://dx.doi.org/10.1038/s41598-017-01535-4
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author Saxena, Rachit K.
Kale, Sandip M.
Kumar, Vinay
Parupali, Swathi
Joshi, Shourabh
Singh, Vikas
Garg, Vanika
Das, Roma R.
Sharma, Mamta
Yamini, K. N.
Ghanta, Anuradha
Rathore, Abhishek
Sameerkumar, C. V.
Saxena, K. B.
Varshney, Rajeev K.
author_facet Saxena, Rachit K.
Kale, Sandip M.
Kumar, Vinay
Parupali, Swathi
Joshi, Shourabh
Singh, Vikas
Garg, Vanika
Das, Roma R.
Sharma, Mamta
Yamini, K. N.
Ghanta, Anuradha
Rathore, Abhishek
Sameerkumar, C. V.
Saxena, K. B.
Varshney, Rajeev K.
author_sort Saxena, Rachit K.
collection PubMed
description 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 F(2), 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 (F(2)) 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 F(2) (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.
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spelling pubmed-54317542017-05-16 Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea Saxena, Rachit K. Kale, Sandip M. Kumar, Vinay Parupali, Swathi Joshi, Shourabh Singh, Vikas Garg, Vanika Das, Roma R. Sharma, Mamta Yamini, K. N. Ghanta, Anuradha Rathore, Abhishek Sameerkumar, C. V. Saxena, K. B. Varshney, Rajeev K. Sci Rep Article 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 F(2), 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 (F(2)) 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 F(2) (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. Nature Publishing Group UK 2017-05-12 /pmc/articles/PMC5431754/ /pubmed/28500330 http://dx.doi.org/10.1038/s41598-017-01535-4 Text en © The Author(s) 2017 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Saxena, Rachit K.
Kale, Sandip M.
Kumar, Vinay
Parupali, Swathi
Joshi, Shourabh
Singh, Vikas
Garg, Vanika
Das, Roma R.
Sharma, Mamta
Yamini, K. N.
Ghanta, Anuradha
Rathore, Abhishek
Sameerkumar, C. V.
Saxena, K. B.
Varshney, Rajeev K.
Genotyping-by-sequencing of three mapping populations for identification of candidate genomic regions for resistance to sterility mosaic disease in pigeonpea
title 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_short 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
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5431754/
https://www.ncbi.nlm.nih.gov/pubmed/28500330
http://dx.doi.org/10.1038/s41598-017-01535-4
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