Variance heterogeneity genome‐wide mapping for cadmium in bread wheat reveals novel genomic loci and epistatic interactions
Genome‐wide association mapping identifies quantitative trait loci (QTL) that influence the mean differences between the marker genotypes for a given trait. While most loci influence the mean value of a trait, certain loci, known as variance heterogeneity QTL (vQTL) determine the variability of the...
| Main Authors: | , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Wiley
2020
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/164515 |
| _version_ | 1855518770042241024 |
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| author | Hussain, Waseem Campbell, Malachy T. Jarquin, Diego Walia, Harkamal Morota, Gota |
| author_browse | Campbell, Malachy T. Hussain, Waseem Jarquin, Diego Morota, Gota Walia, Harkamal |
| author_facet | Hussain, Waseem Campbell, Malachy T. Jarquin, Diego Walia, Harkamal Morota, Gota |
| author_sort | Hussain, Waseem |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Genome‐wide association mapping identifies quantitative trait loci (QTL) that influence the mean differences between the marker genotypes for a given trait. While most loci influence the mean value of a trait, certain loci, known as variance heterogeneity QTL (vQTL) determine the variability of the trait instead of the mean trait value (mQTL). In the present study, we performed a variance heterogeneity genome‐wide association study (vGWAS) for grain cadmium (Cd) concentration in bread wheat. We used double generalized linear model and hierarchical generalized linear model to identify vQTL associated with grain Cd. We identified novel vQTL regions on chromosomes 2A and 2B that contribute to the Cd variation and loci that affect both mean and variance heterogeneity (mvQTL) on chromosome 5A. In addition, our results demonstrated the presence of epistatic interactions between vQTL and mvQTL, which could explain variance heterogeneity. Overall, we provide novel insights into the genetic architecture of grain Cd concentration and report the first application of vGWAS in wheat. Moreover, our findings indicated that epistasis is an important mechanism underlying natural variation for grain Cd concentration. |
| format | Journal Article |
| id | CGSpace164515 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2020 |
| publishDateRange | 2020 |
| publishDateSort | 2020 |
| publisher | Wiley |
| publisherStr | Wiley |
| record_format | dspace |
| spelling | CGSpace1645152025-08-21T15:39:31Z Variance heterogeneity genome‐wide mapping for cadmium in bread wheat reveals novel genomic loci and epistatic interactions Hussain, Waseem Campbell, Malachy T. Jarquin, Diego Walia, Harkamal Morota, Gota agronomy and crop science genetics plant science Genome‐wide association mapping identifies quantitative trait loci (QTL) that influence the mean differences between the marker genotypes for a given trait. While most loci influence the mean value of a trait, certain loci, known as variance heterogeneity QTL (vQTL) determine the variability of the trait instead of the mean trait value (mQTL). In the present study, we performed a variance heterogeneity genome‐wide association study (vGWAS) for grain cadmium (Cd) concentration in bread wheat. We used double generalized linear model and hierarchical generalized linear model to identify vQTL associated with grain Cd. We identified novel vQTL regions on chromosomes 2A and 2B that contribute to the Cd variation and loci that affect both mean and variance heterogeneity (mvQTL) on chromosome 5A. In addition, our results demonstrated the presence of epistatic interactions between vQTL and mvQTL, which could explain variance heterogeneity. Overall, we provide novel insights into the genetic architecture of grain Cd concentration and report the first application of vGWAS in wheat. Moreover, our findings indicated that epistasis is an important mechanism underlying natural variation for grain Cd concentration. 2020-03 2024-12-19T12:53:59Z 2024-12-19T12:53:59Z Journal Article https://hdl.handle.net/10568/164515 en Open Access Wiley Hussain, Waseem; Campbell, Malachy T.; Jarquin, Diego; Walia, Harkamal and Morota, Gota. 2020. Variance heterogeneity genome‐wide mapping for cadmium in bread wheat reveals novel genomic loci and epistatic interactions. The Plant Genome, Volume 13, no. 1 |
| spellingShingle | agronomy and crop science genetics plant science Hussain, Waseem Campbell, Malachy T. Jarquin, Diego Walia, Harkamal Morota, Gota Variance heterogeneity genome‐wide mapping for cadmium in bread wheat reveals novel genomic loci and epistatic interactions |
| title | Variance heterogeneity genome‐wide mapping for cadmium in bread wheat reveals novel genomic loci and epistatic interactions |
| title_full | Variance heterogeneity genome‐wide mapping for cadmium in bread wheat reveals novel genomic loci and epistatic interactions |
| title_fullStr | Variance heterogeneity genome‐wide mapping for cadmium in bread wheat reveals novel genomic loci and epistatic interactions |
| title_full_unstemmed | Variance heterogeneity genome‐wide mapping for cadmium in bread wheat reveals novel genomic loci and epistatic interactions |
| title_short | Variance heterogeneity genome‐wide mapping for cadmium in bread wheat reveals novel genomic loci and epistatic interactions |
| title_sort | variance heterogeneity genome wide mapping for cadmium in bread wheat reveals novel genomic loci and epistatic interactions |
| topic | agronomy and crop science genetics plant science |
| url | https://hdl.handle.net/10568/164515 |
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