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Development and Exploitation of KASP Assays for Genes Underpinning Drought Tolerance Among Wheat Cultivars From Pakistan

High-throughput genotyping for functional markers offers an excellent opportunity to effectively practice marker-assisted selection (MAS) while breeding cultivars. We developed kompetitive allele-specific PCR (KASP) assays for genes conferring drought tolerance in common wheat (Triticum aestivum L.)...

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Autores principales: Ur Rehman, Shoaib, Ali Sher, Muhammad, Saddique, Muhammad Abu Bakar, Ali, Zulfiqar, Khan, Mahmood Alam, Mao, Xinguo, Irshad, Ahsan, Sajjad, Muhammad, Ikram, Rao Muhammad, Naeem, Mahnoor, Jing, Ruilian
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8220157/
https://www.ncbi.nlm.nih.gov/pubmed/34178041
http://dx.doi.org/10.3389/fgene.2021.684702
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author Ur Rehman, Shoaib
Ali Sher, Muhammad
Saddique, Muhammad Abu Bakar
Ali, Zulfiqar
Khan, Mahmood Alam
Mao, Xinguo
Irshad, Ahsan
Sajjad, Muhammad
Ikram, Rao Muhammad
Naeem, Mahnoor
Jing, Ruilian
author_facet Ur Rehman, Shoaib
Ali Sher, Muhammad
Saddique, Muhammad Abu Bakar
Ali, Zulfiqar
Khan, Mahmood Alam
Mao, Xinguo
Irshad, Ahsan
Sajjad, Muhammad
Ikram, Rao Muhammad
Naeem, Mahnoor
Jing, Ruilian
author_sort Ur Rehman, Shoaib
collection PubMed
description High-throughput genotyping for functional markers offers an excellent opportunity to effectively practice marker-assisted selection (MAS) while breeding cultivars. We developed kompetitive allele-specific PCR (KASP) assays for genes conferring drought tolerance in common wheat (Triticum aestivum L.). In total, 11 KASP assays developed in this study and five already reported assays were used for their application in wheat breeding. We investigated alleles at 16 loci associated with drought tolerance among 153 Pakistani hexaploid wheat cultivars released during 1953–2016; 28 diploid wheat accessions (16 for AA and 12 for BB) and 19 tetraploid wheat (AABB) were used to study the evolutionary history of the studied genes. Superior allelic variations of the studied genes were significantly associated with higher grain yield. Favored haplotypes of TaSnRK2.3-1A, TaSnRK2.3-1B, TaSnRK2.9-5A, TaSAP-7B, and TaLTPs-1A predominated in Pakistani wheat germplasm indicating unconscious pyramiding and selection pressure on favorable haplotypes during selection breeding. TaSnRK2.8-5A, TaDreb-B1, 1-feh w3, TaPPH-7A, TaMOC-7A, and TaPARG-2A had moderate to low frequencies of favorable haplotype among Pakistani wheat germplasm pointing toward introgression of favorable haplotypes by deploying functional markers in marker-assisted breeding. The KASP assays were compared with gel-based markers for reliability and phenotypically validated among 62 Pakistani wheat cultivars. Association analyses showed that the favorable allelic variations were significantly associated with grain yield-contributing traits. The developed molecular marker toolkit of the genes can be instrumental for the wheat breeding in Pakistan.
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spelling pubmed-82201572021-06-24 Development and Exploitation of KASP Assays for Genes Underpinning Drought Tolerance Among Wheat Cultivars From Pakistan Ur Rehman, Shoaib Ali Sher, Muhammad Saddique, Muhammad Abu Bakar Ali, Zulfiqar Khan, Mahmood Alam Mao, Xinguo Irshad, Ahsan Sajjad, Muhammad Ikram, Rao Muhammad Naeem, Mahnoor Jing, Ruilian Front Genet Genetics High-throughput genotyping for functional markers offers an excellent opportunity to effectively practice marker-assisted selection (MAS) while breeding cultivars. We developed kompetitive allele-specific PCR (KASP) assays for genes conferring drought tolerance in common wheat (Triticum aestivum L.). In total, 11 KASP assays developed in this study and five already reported assays were used for their application in wheat breeding. We investigated alleles at 16 loci associated with drought tolerance among 153 Pakistani hexaploid wheat cultivars released during 1953–2016; 28 diploid wheat accessions (16 for AA and 12 for BB) and 19 tetraploid wheat (AABB) were used to study the evolutionary history of the studied genes. Superior allelic variations of the studied genes were significantly associated with higher grain yield. Favored haplotypes of TaSnRK2.3-1A, TaSnRK2.3-1B, TaSnRK2.9-5A, TaSAP-7B, and TaLTPs-1A predominated in Pakistani wheat germplasm indicating unconscious pyramiding and selection pressure on favorable haplotypes during selection breeding. TaSnRK2.8-5A, TaDreb-B1, 1-feh w3, TaPPH-7A, TaMOC-7A, and TaPARG-2A had moderate to low frequencies of favorable haplotype among Pakistani wheat germplasm pointing toward introgression of favorable haplotypes by deploying functional markers in marker-assisted breeding. The KASP assays were compared with gel-based markers for reliability and phenotypically validated among 62 Pakistani wheat cultivars. Association analyses showed that the favorable allelic variations were significantly associated with grain yield-contributing traits. The developed molecular marker toolkit of the genes can be instrumental for the wheat breeding in Pakistan. Frontiers Media S.A. 2021-06-09 /pmc/articles/PMC8220157/ /pubmed/34178041 http://dx.doi.org/10.3389/fgene.2021.684702 Text en Copyright © 2021 Ur Rehman, Ali Sher, Saddique, Ali, Khan, Mao, Irshad, Sajjad, Ikram, Naeem and Jing. 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 Genetics
Ur Rehman, Shoaib
Ali Sher, Muhammad
Saddique, Muhammad Abu Bakar
Ali, Zulfiqar
Khan, Mahmood Alam
Mao, Xinguo
Irshad, Ahsan
Sajjad, Muhammad
Ikram, Rao Muhammad
Naeem, Mahnoor
Jing, Ruilian
Development and Exploitation of KASP Assays for Genes Underpinning Drought Tolerance Among Wheat Cultivars From Pakistan
title Development and Exploitation of KASP Assays for Genes Underpinning Drought Tolerance Among Wheat Cultivars From Pakistan
title_full Development and Exploitation of KASP Assays for Genes Underpinning Drought Tolerance Among Wheat Cultivars From Pakistan
title_fullStr Development and Exploitation of KASP Assays for Genes Underpinning Drought Tolerance Among Wheat Cultivars From Pakistan
title_full_unstemmed Development and Exploitation of KASP Assays for Genes Underpinning Drought Tolerance Among Wheat Cultivars From Pakistan
title_short Development and Exploitation of KASP Assays for Genes Underpinning Drought Tolerance Among Wheat Cultivars From Pakistan
title_sort development and exploitation of kasp assays for genes underpinning drought tolerance among wheat cultivars from pakistan
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8220157/
https://www.ncbi.nlm.nih.gov/pubmed/34178041
http://dx.doi.org/10.3389/fgene.2021.684702
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