Menard, G and Sandhu, N and Anderson, D and Catolos, M and Hassall, K L and Eastmond, P J and Kumar, A and Kurup, S (2021) Laboratory phenomics predicts field performance and identifies superior indica haplotypes for early seedling vigour in dry direct-seeded rice. Genomics, 113 (6). pp. 4227-4236. ISSN 0888-7543
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Abstract
Seedling vigour is an important agronomic trait and is gaining attention in Asian rice (Oryza sativa) as cultivation practices shift from transplanting to forms of direct seeding. To understand the genetic control of rice seedling vigour in dry direct seeded (aerobic) conditions we measured multiple seedling traits in 684 accessions from the 3000 Rice Genomes (3K-RG) population in both the laboratory and field at three planting depths. Our data show that phenotyping of mesocotyl length in laboratory conditions is a good predictor of field performance. By performing a genome wide association study, we found that the main QTL for mesocotyl length, percentage seedling emergence and shoot biomass are co-located on the short arm of chromosome 7. We show that haplotypes in the indica subgroup from this region can be used to predict the seedling vigour of 3K-RG accessions. The selected accessions may serve as potential donors in genomics-assisted breeding programs.
| Item Type: | Article |
|---|---|
| Divisions: | Others |
| CRP: | UNSPECIFIED |
| Uncontrolled Keywords: | Rice, Direct seeding, GWAS, Phenomics, Seedling vigour, Haplotypes |
| Subjects: | Others > Rice Others > Genetics and Genomics Others > Seeds/Seed Bank |
| Depositing User: | Mr Nagaraju T |
| Date Deposited: | 10 Jun 2025 03:40 |
| Last Modified: | 10 Jun 2025 03:40 |
| URI: | http://oar.icrisat.org/id/eprint/13137 |
| Official URL: | https://www.sciencedirect.com/science/article/pii/... |
| Projects: | UNSPECIFIED |
| Funders: | UNSPECIFIED |
| Acknowledgement: | We thank Dr. Guillaume Lobet for his guidance, and kindly adapting his Smartroot plugin. We would like to thank the Rothamsted Research facilities dept. for their assistance in the construction of the phenotyping device used during the screen. This project was funded by BBSRC GCRF (BB/P023428/1). |
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