Genome-Wide Association Analysis of Grain Size Traits in a Global Barley (Hordeum vulgare L.) Collection
Barley (Hordeum vulgare L.) grain size is a critical factor in determining storage capacity during grain filling. Grain size is a complex quantitative trait easily influenced by environmental factors and directly affects yield and malt quality. In this study, we aimed to identify marker-trait associ...
| Main Authors: | , , , , , , |
|---|---|
| Format: | Conference Paper |
| Language: | Inglés |
| Published: |
2024
|
| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/137804 |
| _version_ | 1855521334774202368 |
|---|---|
| author | Bouhlal, Outmane Sanchez-Garcia, Miguel Moulakat, Adil Rachdad, Fatima Ezzahra Hiddar, Houda Kandil, Mostafa Visioni, Andrea |
| author_browse | Bouhlal, Outmane Hiddar, Houda Kandil, Mostafa Moulakat, Adil Rachdad, Fatima Ezzahra Sanchez-Garcia, Miguel Visioni, Andrea |
| author_facet | Bouhlal, Outmane Sanchez-Garcia, Miguel Moulakat, Adil Rachdad, Fatima Ezzahra Hiddar, Houda Kandil, Mostafa Visioni, Andrea |
| author_sort | Bouhlal, Outmane |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Barley (Hordeum vulgare L.) grain size is a critical factor in determining storage capacity during grain filling. Grain size is a complex quantitative trait easily influenced by environmental factors and directly affects yield and malt quality. In this study, we aimed to identify marker-trait associations (MTAs) and putative candidate genes (CGs) related to grain size traits using a global spring barley collection genotyped with a 50K SNP chip. Data on grain size traits was collected from a set of 275 barley accessions at two different sites over two consecutive years in Morocco. The barley lines exhibited significant phenotypic variation for all studied traits. A broad-sense heritability over 60% was observed across all tested environments. Furthermore, highly significant correlations were observed among grain size traits. Population structure analyses showed four distinct sub-populations. Genome-wide association analysis (GWAS) using best linear unbiased estimators (BLUEs) unveiled 233 MTAs linked to thousand kernel weight, number of kernels per spike, weight of kernels per spike, and grain shape traits including length, width, perimeter, area, and circularity. By clustering significant markers with high Linkage Disequilibrium (LD) and within a 0.61 Mb distance, 13 QTLs were identified across all environments. Three stable genomic regions, located on chromosomes 1H (488.88 - 489.15 Mb), 2H (581 – 582.67 Mb), and 7H (496.43 – 532.13 Mb), were associated with multiple grain size traits, highlighting their potential significance for Moroccan dry environments. Notably, these genomic regions harbor QTLs relevant to several trait and were enriched with functional proteins involved in diverse cellular processes including plant reproductive development, grain production, and drought tolerance. Overall, the study provides essential information about significant markers and new QTL associated to grain size traits that should be further validated for their potential use in marker-assisted selection. |
| format | Conference Paper |
| id | CGSpace137804 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| record_format | dspace |
| spelling | CGSpace1378042026-01-15T02:05:49Z Genome-Wide Association Analysis of Grain Size Traits in a Global Barley (Hordeum vulgare L.) Collection Bouhlal, Outmane Sanchez-Garcia, Miguel Moulakat, Adil Rachdad, Fatima Ezzahra Hiddar, Houda Kandil, Mostafa Visioni, Andrea barley grain size barley qtls genome-wide association analysis population structure linkage disequilibrium Barley (Hordeum vulgare L.) grain size is a critical factor in determining storage capacity during grain filling. Grain size is a complex quantitative trait easily influenced by environmental factors and directly affects yield and malt quality. In this study, we aimed to identify marker-trait associations (MTAs) and putative candidate genes (CGs) related to grain size traits using a global spring barley collection genotyped with a 50K SNP chip. Data on grain size traits was collected from a set of 275 barley accessions at two different sites over two consecutive years in Morocco. The barley lines exhibited significant phenotypic variation for all studied traits. A broad-sense heritability over 60% was observed across all tested environments. Furthermore, highly significant correlations were observed among grain size traits. Population structure analyses showed four distinct sub-populations. Genome-wide association analysis (GWAS) using best linear unbiased estimators (BLUEs) unveiled 233 MTAs linked to thousand kernel weight, number of kernels per spike, weight of kernels per spike, and grain shape traits including length, width, perimeter, area, and circularity. By clustering significant markers with high Linkage Disequilibrium (LD) and within a 0.61 Mb distance, 13 QTLs were identified across all environments. Three stable genomic regions, located on chromosomes 1H (488.88 - 489.15 Mb), 2H (581 – 582.67 Mb), and 7H (496.43 – 532.13 Mb), were associated with multiple grain size traits, highlighting their potential significance for Moroccan dry environments. Notably, these genomic regions harbor QTLs relevant to several trait and were enriched with functional proteins involved in diverse cellular processes including plant reproductive development, grain production, and drought tolerance. Overall, the study provides essential information about significant markers and new QTL associated to grain size traits that should be further validated for their potential use in marker-assisted selection. 2024-01-16T18:24:11Z 2024-01-16T18:24:11Z Conference Paper https://hdl.handle.net/10568/137804 en Open Access application/pdf Outmane Bouhlal, Miguel Sanchez-Garcia, Adil Moulakat, Fatima Ezzahra Rachdad, Houda Hiddar, Mostafa Kandil, Andrea Visioni. (23/10/2023). Genome-Wide Association Analysis of Grain Size Traits in a Global Barley (Hordeum vulgare L. ) Collection. |
| spellingShingle | barley grain size barley qtls genome-wide association analysis population structure linkage disequilibrium Bouhlal, Outmane Sanchez-Garcia, Miguel Moulakat, Adil Rachdad, Fatima Ezzahra Hiddar, Houda Kandil, Mostafa Visioni, Andrea Genome-Wide Association Analysis of Grain Size Traits in a Global Barley (Hordeum vulgare L.) Collection |
| title | Genome-Wide Association Analysis of Grain Size Traits in a Global Barley (Hordeum vulgare L.) Collection |
| title_full | Genome-Wide Association Analysis of Grain Size Traits in a Global Barley (Hordeum vulgare L.) Collection |
| title_fullStr | Genome-Wide Association Analysis of Grain Size Traits in a Global Barley (Hordeum vulgare L.) Collection |
| title_full_unstemmed | Genome-Wide Association Analysis of Grain Size Traits in a Global Barley (Hordeum vulgare L.) Collection |
| title_short | Genome-Wide Association Analysis of Grain Size Traits in a Global Barley (Hordeum vulgare L.) Collection |
| title_sort | genome wide association analysis of grain size traits in a global barley hordeum vulgare l collection |
| topic | barley grain size barley qtls genome-wide association analysis population structure linkage disequilibrium |
| url | https://hdl.handle.net/10568/137804 |
| work_keys_str_mv | AT bouhlaloutmane genomewideassociationanalysisofgrainsizetraitsinaglobalbarleyhordeumvulgarelcollection AT sanchezgarciamiguel genomewideassociationanalysisofgrainsizetraitsinaglobalbarleyhordeumvulgarelcollection AT moulakatadil genomewideassociationanalysisofgrainsizetraitsinaglobalbarleyhordeumvulgarelcollection AT rachdadfatimaezzahra genomewideassociationanalysisofgrainsizetraitsinaglobalbarleyhordeumvulgarelcollection AT hiddarhouda genomewideassociationanalysisofgrainsizetraitsinaglobalbarleyhordeumvulgarelcollection AT kandilmostafa genomewideassociationanalysisofgrainsizetraitsinaglobalbarleyhordeumvulgarelcollection AT visioniandrea genomewideassociationanalysisofgrainsizetraitsinaglobalbarleyhordeumvulgarelcollection |