Genome-wide association mapping reveals novel genes associated with coleoptile length in a worldwide collection of barley
Abstract Background Drought is projected to become more frequent and severe in a changing climate, which requires deep sowing of crop seeds to reach soil moisture. Coleoptile length is a key agronomic trait in cereal crops such as barley, as long coleoptiles are linked to drought tolerance and impro...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2020-07-01
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| Series: | BMC Plant Biology |
| Subjects: | |
| Online Access: | http://link.springer.com/article/10.1186/s12870-020-02547-5 |
| _version_ | 1818342481080614912 |
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| author | Hao Luo Camilla Beate Hill Gaofeng Zhou Xiao-Qi Zhang Chengdao Li |
| author_facet | Hao Luo Camilla Beate Hill Gaofeng Zhou Xiao-Qi Zhang Chengdao Li |
| author_sort | Hao Luo |
| collection | DOAJ |
| description | Abstract Background Drought is projected to become more frequent and severe in a changing climate, which requires deep sowing of crop seeds to reach soil moisture. Coleoptile length is a key agronomic trait in cereal crops such as barley, as long coleoptiles are linked to drought tolerance and improved seedling establishment under early water-limited growing conditions. Results In this study, we detected large genetic variation in a panel of 328 diverse barley (Hordeum vulgare L.) accessions. To understand the overall genetic basis of barley coleoptile length, all accessions were germinated in the dark and phenotyped for coleoptile length after 2 weeks. The investigated barleys had significant variation for coleoptile length. We then conducted genome-wide association studies (GWASs) with more than 30,000 molecular markers and identified 8 genes and 12 intergenic loci significantly associated with coleoptile length in our barley panel. The Squamosa promoter-binding-like protein 3 gene (SPL3) on chromosome 6H was identified as a major candidate gene. The missense variant on the second exon changed serine to alanine in the conserved SBP domain, which likely impacted its DNA-binding activity. Conclusion This study provides genetic loci for seedling coleoptile length along with candidate genes for future potential incorporation in breeding programmes to enhance early vigour and yield potential in water-limited environments. |
| first_indexed | 2024-12-13T16:15:22Z |
| format | Article |
| id | doaj.art-9df6375d3ad146d4a159b61bd5fa3101 |
| institution | Directory Open Access Journal |
| issn | 1471-2229 |
| language | English |
| last_indexed | 2024-12-13T16:15:22Z |
| publishDate | 2020-07-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Plant Biology |
| spelling | doaj.art-9df6375d3ad146d4a159b61bd5fa31012022-12-21T23:38:51ZengBMCBMC Plant Biology1471-22292020-07-0120111310.1186/s12870-020-02547-5Genome-wide association mapping reveals novel genes associated with coleoptile length in a worldwide collection of barleyHao Luo0Camilla Beate Hill1Gaofeng Zhou2Xiao-Qi Zhang3Chengdao Li4Western Barley Genetics Alliance, Agricultural Sciences, College of Science, Health, Engineering and Education, Murdoch UniversityWestern Barley Genetics Alliance, Agricultural Sciences, College of Science, Health, Engineering and Education, Murdoch UniversityDepartment of Primary Industries and Regional Development, Agriculture and FoodWestern Barley Genetics Alliance, Agricultural Sciences, College of Science, Health, Engineering and Education, Murdoch UniversityWestern Barley Genetics Alliance, Agricultural Sciences, College of Science, Health, Engineering and Education, Murdoch UniversityAbstract Background Drought is projected to become more frequent and severe in a changing climate, which requires deep sowing of crop seeds to reach soil moisture. Coleoptile length is a key agronomic trait in cereal crops such as barley, as long coleoptiles are linked to drought tolerance and improved seedling establishment under early water-limited growing conditions. Results In this study, we detected large genetic variation in a panel of 328 diverse barley (Hordeum vulgare L.) accessions. To understand the overall genetic basis of barley coleoptile length, all accessions were germinated in the dark and phenotyped for coleoptile length after 2 weeks. The investigated barleys had significant variation for coleoptile length. We then conducted genome-wide association studies (GWASs) with more than 30,000 molecular markers and identified 8 genes and 12 intergenic loci significantly associated with coleoptile length in our barley panel. The Squamosa promoter-binding-like protein 3 gene (SPL3) on chromosome 6H was identified as a major candidate gene. The missense variant on the second exon changed serine to alanine in the conserved SBP domain, which likely impacted its DNA-binding activity. Conclusion This study provides genetic loci for seedling coleoptile length along with candidate genes for future potential incorporation in breeding programmes to enhance early vigour and yield potential in water-limited environments.http://link.springer.com/article/10.1186/s12870-020-02547-5Coleoptile lengthDeep seedingBarleyGWAS |
| spellingShingle | Hao Luo Camilla Beate Hill Gaofeng Zhou Xiao-Qi Zhang Chengdao Li Genome-wide association mapping reveals novel genes associated with coleoptile length in a worldwide collection of barley BMC Plant Biology Coleoptile length Deep seeding Barley GWAS |
| title | Genome-wide association mapping reveals novel genes associated with coleoptile length in a worldwide collection of barley |
| title_full | Genome-wide association mapping reveals novel genes associated with coleoptile length in a worldwide collection of barley |
| title_fullStr | Genome-wide association mapping reveals novel genes associated with coleoptile length in a worldwide collection of barley |
| title_full_unstemmed | Genome-wide association mapping reveals novel genes associated with coleoptile length in a worldwide collection of barley |
| title_short | Genome-wide association mapping reveals novel genes associated with coleoptile length in a worldwide collection of barley |
| title_sort | genome wide association mapping reveals novel genes associated with coleoptile length in a worldwide collection of barley |
| topic | Coleoptile length Deep seeding Barley GWAS |
| url | http://link.springer.com/article/10.1186/s12870-020-02547-5 |
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