Characterization of the genetic basis of local adaptation of wheat landraces from Iran and Pakistan using genome‐wide association study

Abstract Characterization of genomic regions underlying adaptation of landraces can reveal a quantitative genetics framework for local wheat (Triticum aestivum L.) adaptability. A collection of 512 wheat landraces from the eastern edge of the Fertile Crescent in Iran and Pakistan were genotyped usin...

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Autores principales:	Uzma Hanif, Hadi Alipour, Alvina Gul, Li Jing, Reza Darvishzadeh, Rabia Amir, Faiza Munir, Muhammad Kashif Ilyas, Abdul Ghafoor, Sadar Uddin Siddiqui, Paul St. Amand, Amy Bernado, Guihua Bai, Kai Sonder, Awais Rasheed, Zhonghu He, Huihui Li
Formato:	article
Lenguaje:	EN
Publicado:	Wiley 2021
Materias:	Plant culture SB1-1110 Genetics QH426-470
Acceso en línea:	https://doaj.org/article/5daaa31db5b04598a480a0f71162f012
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spelling	oai:doaj.org-article:5daaa31db5b04598a480a0f71162f0122021-12-05T07:50:12ZCharacterization of the genetic basis of local adaptation of wheat landraces from Iran and Pakistan using genome‐wide association study1940-337210.1002/tpg2.20096https://doaj.org/article/5daaa31db5b04598a480a0f71162f0122021-11-01T00:00:00Zhttps://doi.org/10.1002/tpg2.20096https://doaj.org/toc/1940-3372Abstract Characterization of genomic regions underlying adaptation of landraces can reveal a quantitative genetics framework for local wheat (Triticum aestivum L.) adaptability. A collection of 512 wheat landraces from the eastern edge of the Fertile Crescent in Iran and Pakistan were genotyped using genome‐wide single nucleotide polymorphism markers generated by genotyping‐by‐sequencing. The minor allele frequency (MAF) and the heterozygosity (H) of Pakistani wheat landraces (MAF = 0.19, H = 0.008) were slightly higher than the Iranian wheat landraces (MAF = 0.17, H = 0.005), indicating that Pakistani landraces were slightly more genetically diverse. Population structure analysis clearly separated the Pakistani landraces from Iranian landraces, which indicates two separate adaptability trajectories. The large‐scale agro‐climatic data of seven variables were quite dissimilar between Iran and Pakistan as revealed by the correlation coefficients. Genome‐wide association study identified 91 and 58 loci using agroclimatic data, which likely underpin local adaptability of the wheat landraces from Iran and Pakistan, respectively. Selective sweep analysis identified significant hits on chromosomes 4A, 4B, 6B, 7B, 2D, and 6D, which were colocalized with the loci associated with local adaptability and with some known genes related to flowering time and grain size. This study provides insight into the genetic diversity with emphasis on the genetic architecture of loci involved in adaptation to local environments, which has breeding implications.Uzma HanifHadi AlipourAlvina GulLi JingReza DarvishzadehRabia AmirFaiza MunirMuhammad Kashif IlyasAbdul GhafoorSadar Uddin SiddiquiPaul St. AmandAmy BernadoGuihua BaiKai SonderAwais RasheedZhonghu HeHuihui LiWileyarticlePlant cultureSB1-1110GeneticsQH426-470ENThe Plant Genome, Vol 14, Iss 3, Pp n/a-n/a (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Plant culture SB1-1110 Genetics QH426-470
spellingShingle	Plant culture SB1-1110 Genetics QH426-470 Uzma Hanif Hadi Alipour Alvina Gul Li Jing Reza Darvishzadeh Rabia Amir Faiza Munir Muhammad Kashif Ilyas Abdul Ghafoor Sadar Uddin Siddiqui Paul St. Amand Amy Bernado Guihua Bai Kai Sonder Awais Rasheed Zhonghu He Huihui Li Characterization of the genetic basis of local adaptation of wheat landraces from Iran and Pakistan using genome‐wide association study
description	Abstract Characterization of genomic regions underlying adaptation of landraces can reveal a quantitative genetics framework for local wheat (Triticum aestivum L.) adaptability. A collection of 512 wheat landraces from the eastern edge of the Fertile Crescent in Iran and Pakistan were genotyped using genome‐wide single nucleotide polymorphism markers generated by genotyping‐by‐sequencing. The minor allele frequency (MAF) and the heterozygosity (H) of Pakistani wheat landraces (MAF = 0.19, H = 0.008) were slightly higher than the Iranian wheat landraces (MAF = 0.17, H = 0.005), indicating that Pakistani landraces were slightly more genetically diverse. Population structure analysis clearly separated the Pakistani landraces from Iranian landraces, which indicates two separate adaptability trajectories. The large‐scale agro‐climatic data of seven variables were quite dissimilar between Iran and Pakistan as revealed by the correlation coefficients. Genome‐wide association study identified 91 and 58 loci using agroclimatic data, which likely underpin local adaptability of the wheat landraces from Iran and Pakistan, respectively. Selective sweep analysis identified significant hits on chromosomes 4A, 4B, 6B, 7B, 2D, and 6D, which were colocalized with the loci associated with local adaptability and with some known genes related to flowering time and grain size. This study provides insight into the genetic diversity with emphasis on the genetic architecture of loci involved in adaptation to local environments, which has breeding implications.
format	article
author	Uzma Hanif Hadi Alipour Alvina Gul Li Jing Reza Darvishzadeh Rabia Amir Faiza Munir Muhammad Kashif Ilyas Abdul Ghafoor Sadar Uddin Siddiqui Paul St. Amand Amy Bernado Guihua Bai Kai Sonder Awais Rasheed Zhonghu He Huihui Li
author_facet	Uzma Hanif Hadi Alipour Alvina Gul Li Jing Reza Darvishzadeh Rabia Amir Faiza Munir Muhammad Kashif Ilyas Abdul Ghafoor Sadar Uddin Siddiqui Paul St. Amand Amy Bernado Guihua Bai Kai Sonder Awais Rasheed Zhonghu He Huihui Li
author_sort	Uzma Hanif
title	Characterization of the genetic basis of local adaptation of wheat landraces from Iran and Pakistan using genome‐wide association study
title_short	Characterization of the genetic basis of local adaptation of wheat landraces from Iran and Pakistan using genome‐wide association study
title_full	Characterization of the genetic basis of local adaptation of wheat landraces from Iran and Pakistan using genome‐wide association study
title_fullStr	Characterization of the genetic basis of local adaptation of wheat landraces from Iran and Pakistan using genome‐wide association study
title_full_unstemmed	Characterization of the genetic basis of local adaptation of wheat landraces from Iran and Pakistan using genome‐wide association study
title_sort	characterization of the genetic basis of local adaptation of wheat landraces from iran and pakistan using genome‐wide association study
publisher	Wiley
publishDate	2021
url	https://doaj.org/article/5daaa31db5b04598a480a0f71162f012
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Characterization of the genetic basis of local adaptation of wheat landraces from Iran and Pakistan using genome‐wide association study

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