Genome-Wide Association Mapping of QTL Underlying Groat Protein Content of a Diverse Panel of Oat Accessions
Groat protein content (GPC) is a key quality trait attribute in oat. Understanding the variation of GPC in oat germplasms and identifying genomic regions associated with GPC are essential for improving this trait. In this study, the GPC of 174 diverse oat accessions was evaluated in three field tria...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2023-03-01
|
| Series: | International Journal of Molecular Sciences |
| Subjects: | |
| Online Access: | https://www.mdpi.com/1422-0067/24/6/5581 |
| _version_ | 1797611248347512832 |
|---|---|
| author | Honghai Yan Haixu Zhang Pingping Zhou Changzhong Ren Yuanying Peng |
| author_facet | Honghai Yan Haixu Zhang Pingping Zhou Changzhong Ren Yuanying Peng |
| author_sort | Honghai Yan |
| collection | DOAJ |
| description | Groat protein content (GPC) is a key quality trait attribute in oat. Understanding the variation of GPC in oat germplasms and identifying genomic regions associated with GPC are essential for improving this trait. In this study, the GPC of 174 diverse oat accessions was evaluated in three field trials. The results showed a wide variation in GPC, ranging from 6.97% to 22.24% in this panel. Hulless oats displayed a significantly higher GPC compared to hulled oats across all environments. A GWAS analysis was performed based on 38,313 high-quality SNPs, which detected 27 non-redundant QTLs with 41 SNPs significantly associated with GPC. Two QTLs on chromosome 6C (QTL16) and 4D (QTL11) were consistently detected in multiple environments, with QTL16 being the most significant and explaining the highest proportion of the phenotypical variation in all tested environments except in CZ20. Haplotype analysis showed that the favorable haplotypes for GPC are more prevalent in hulless oats. These findings provide a foundation for future efforts to incorporate favorable alleles into new cultivars through introgression, fine mapping, and cloning of promising QTLs. |
| first_indexed | 2024-03-11T06:26:11Z |
| format | Article |
| id | doaj.art-8446d0097b1f4baa97f39ecf6afe09c0 |
| institution | Directory Open Access Journal |
| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-11T06:26:11Z |
| publishDate | 2023-03-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | International Journal of Molecular Sciences |
| spelling | doaj.art-8446d0097b1f4baa97f39ecf6afe09c02023-11-17T11:36:00ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672023-03-01246558110.3390/ijms24065581Genome-Wide Association Mapping of QTL Underlying Groat Protein Content of a Diverse Panel of Oat AccessionsHonghai Yan0Haixu Zhang1Pingping Zhou2Changzhong Ren3Yuanying Peng4State Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Sichuan Agricultural University, Chengdu 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu 611130, ChinaTriticeae Research Institute, Sichuan Agricultural University, Chengdu 611130, ChinaNational Oat Improvement Center, Baicheng Academy of Agricultural Sciences, Baicheng 137000, ChinaState Key Laboratory of Crop Gene Exploration and Utilization in Southwest China, Sichuan Agricultural University, Chengdu 611130, ChinaGroat protein content (GPC) is a key quality trait attribute in oat. Understanding the variation of GPC in oat germplasms and identifying genomic regions associated with GPC are essential for improving this trait. In this study, the GPC of 174 diverse oat accessions was evaluated in three field trials. The results showed a wide variation in GPC, ranging from 6.97% to 22.24% in this panel. Hulless oats displayed a significantly higher GPC compared to hulled oats across all environments. A GWAS analysis was performed based on 38,313 high-quality SNPs, which detected 27 non-redundant QTLs with 41 SNPs significantly associated with GPC. Two QTLs on chromosome 6C (QTL16) and 4D (QTL11) were consistently detected in multiple environments, with QTL16 being the most significant and explaining the highest proportion of the phenotypical variation in all tested environments except in CZ20. Haplotype analysis showed that the favorable haplotypes for GPC are more prevalent in hulless oats. These findings provide a foundation for future efforts to incorporate favorable alleles into new cultivars through introgression, fine mapping, and cloning of promising QTLs.https://www.mdpi.com/1422-0067/24/6/5581oatgroat protein contentGWASfavorable alleles |
| spellingShingle | Honghai Yan Haixu Zhang Pingping Zhou Changzhong Ren Yuanying Peng Genome-Wide Association Mapping of QTL Underlying Groat Protein Content of a Diverse Panel of Oat Accessions International Journal of Molecular Sciences oat groat protein content GWAS favorable alleles |
| title | Genome-Wide Association Mapping of QTL Underlying Groat Protein Content of a Diverse Panel of Oat Accessions |
| title_full | Genome-Wide Association Mapping of QTL Underlying Groat Protein Content of a Diverse Panel of Oat Accessions |
| title_fullStr | Genome-Wide Association Mapping of QTL Underlying Groat Protein Content of a Diverse Panel of Oat Accessions |
| title_full_unstemmed | Genome-Wide Association Mapping of QTL Underlying Groat Protein Content of a Diverse Panel of Oat Accessions |
| title_short | Genome-Wide Association Mapping of QTL Underlying Groat Protein Content of a Diverse Panel of Oat Accessions |
| title_sort | genome wide association mapping of qtl underlying groat protein content of a diverse panel of oat accessions |
| topic | oat groat protein content GWAS favorable alleles |
| url | https://www.mdpi.com/1422-0067/24/6/5581 |
| work_keys_str_mv | AT honghaiyan genomewideassociationmappingofqtlunderlyinggroatproteincontentofadiversepanelofoataccessions AT haixuzhang genomewideassociationmappingofqtlunderlyinggroatproteincontentofadiversepanelofoataccessions AT pingpingzhou genomewideassociationmappingofqtlunderlyinggroatproteincontentofadiversepanelofoataccessions AT changzhongren genomewideassociationmappingofqtlunderlyinggroatproteincontentofadiversepanelofoataccessions AT yuanyingpeng genomewideassociationmappingofqtlunderlyinggroatproteincontentofadiversepanelofoataccessions |