Genome-wide association studies of seven agronomic traits under two sowing conditions in bread wheat View Full Text


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Article Info

DATE

2019-04-17

AUTHORS

Muhammad Jamil, Aamir Ali, Alvina Gul, Abdul Ghafoor, Abdul Aziz Napar, Amir M. H. Ibrahim, Naima Huma Naveed, Nasim Ahmad Yasin, Abdul Mujeeb-Kazi

ABSTRACT

BACKGROUND: Wheat is a cool seasoned crop requiring low temperature during grain filling duration and therefore increased temperature causes significant yield reduction. A set of 125 spring wheat genotypes from International Maize and Wheat Improvement Centre (CIMMYT-Mexico) was evaluated for phenological and yield related traits at three locations in Pakistan under normal sowing time and late sowing time for expose to prolonged high temperature. With the help of genome-wide association study using genotyping-by-sequencing, marker trait associations (MTAs) were observed separately for the traits under normal and late sown conditions. RESULTS: Significant reduction ranging from 9 to 74% was observed in all traits under high temperature. Especially 30, 25, 41 and 66% reduction was observed for days to heading (DH), plant height (PH), spikes per plant (SPP) and yield respectively. We identified 55,954 single nucleotide polymorphisms (SNPs) using genotyping by sequencing of these 125 hexaploid spring wheat genotypes and conducted genome-wide association studies (GWAS) for days to heading (DH), grain filled duration (GFD), plant height (PH), spikes per plant (SPP), grain number per spike (GNS), thousand kernel weight (TKW) and grain yield per plot (GY). Genomic regions identified through GWAS explained up to 13% of the phenotypic variance, on average. A total of 139 marker-trait associations (MTAs) across three wheat genomes (56 on genome A, 55 on B and 28 on D) were identified for all the seven traits studied. For days to heading, 20; grain filled duration, 21; plant height, 23; spikes per plant, 13; grain numbers per spike, 8; thousand kernel weight, 21 and for grain yield, 33 MTAs were detected under normal and late sown conditions. CONCLUSIONS: This study identifies the essential resource of genetics research and underpins the chromosomal regions of seven agronomic traits under normal and high temperature. Significant relationship was observed between the number of favored alleles and trait observations. Fourteen protein coding genes with their respective annotations have been searched with the sequence of seven MTAs which were identified in this study. These findings will be helpful in the development of a breeder friendly platform for the selection of high yielding wheat lines at high temperature areas. More... »

PAGES

149

References to SciGraph publications

  • 2014-12-22. Rising temperatures reduce global wheat production in NATURE CLIMATE CHANGE
  • 2010-06-04. Heat and drought adaptive QTL in a wheat population designed to minimize confounding agronomic effects in THEORETICAL AND APPLIED GENETICS
  • 2010-03-07. Mixed linear model approach adapted for genome-wide association studies in NATURE GENETICS
  • 2013-08-03. Molecular approaches for designing heat tolerant wheat in JOURNAL OF PLANT BIOCHEMISTRY AND BIOTECHNOLOGY
  • 2017-06-02. Genome-wide association study for agronomic and physiological traits in spring wheat evaluated in a range of heat prone environments in THEORETICAL AND APPLIED GENETICS
  • 2012-04-05. QTL mapping of terminal heat tolerance in hexaploid wheat (T. aestivum L.) in THEORETICAL AND APPLIED GENETICS
  • 2002-07. Quantitative and molecular characterization of heat tolerance in hexaploid wheat in EUPHYTICA
  • 2017-02-03. Genomewide association study for seeding emergence and tiller number using SNP markers in an elite winter wheat population in JOURNAL OF GENETICS
  • 2014-12-10. Genome-wide association study for grain yield and related traits in an elite spring wheat population grown in temperate irrigated environments in THEORETICAL AND APPLIED GENETICS
  • 2005-12-25. A unified mixed-model method for association mapping that accounts for multiple levels of relatedness in NATURE GENETICS
  • 2015-02-17. Genetic control of plant height in European winter wheat cultivars in THEORETICAL AND APPLIED GENETICS
  • 2007-04-04. Wheat improvement in India: present status, emerging challenges and future prospects in EUPHYTICA
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    http://scigraph.springernature.com/pub.10.1186/s12870-019-1754-6

    DOI

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    34 schema:description BACKGROUND: Wheat is a cool seasoned crop requiring low temperature during grain filling duration and therefore increased temperature causes significant yield reduction. A set of 125 spring wheat genotypes from International Maize and Wheat Improvement Centre (CIMMYT-Mexico) was evaluated for phenological and yield related traits at three locations in Pakistan under normal sowing time and late sowing time for expose to prolonged high temperature. With the help of genome-wide association study using genotyping-by-sequencing, marker trait associations (MTAs) were observed separately for the traits under normal and late sown conditions. RESULTS: Significant reduction ranging from 9 to 74% was observed in all traits under high temperature. Especially 30, 25, 41 and 66% reduction was observed for days to heading (DH), plant height (PH), spikes per plant (SPP) and yield respectively. We identified 55,954 single nucleotide polymorphisms (SNPs) using genotyping by sequencing of these 125 hexaploid spring wheat genotypes and conducted genome-wide association studies (GWAS) for days to heading (DH), grain filled duration (GFD), plant height (PH), spikes per plant (SPP), grain number per spike (GNS), thousand kernel weight (TKW) and grain yield per plot (GY). Genomic regions identified through GWAS explained up to 13% of the phenotypic variance, on average. A total of 139 marker-trait associations (MTAs) across three wheat genomes (56 on genome A, 55 on B and 28 on D) were identified for all the seven traits studied. For days to heading, 20; grain filled duration, 21; plant height, 23; spikes per plant, 13; grain numbers per spike, 8; thousand kernel weight, 21 and for grain yield, 33 MTAs were detected under normal and late sown conditions. CONCLUSIONS: This study identifies the essential resource of genetics research and underpins the chromosomal regions of seven agronomic traits under normal and high temperature. Significant relationship was observed between the number of favored alleles and trait observations. Fourteen protein coding genes with their respective annotations have been searched with the sequence of seven MTAs which were identified in this study. These findings will be helpful in the development of a breeder friendly platform for the selection of high yielding wheat lines at high temperature areas.
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