Laboratory phenomics predicts field performance and identifies superior indica haplotypes for early seedling vigour in dry direct-seeded rice

A - Papers appearing in refereed journals

Menard, G. N., Sandhu, N., Anderson, D., Catolos, M., Hassall, K. L., Eastmond, P. J., 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. https://doi.org/10.1016/j.ygeno.2021.11.006

AuthorsMenard, G. N., Sandhu, N., Anderson, D., Catolos, M., Hassall, K. L., Eastmond, P. J., Kumar, A. and Kurup, S.
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.

KeywordsDirect seeding; GWAS; Haplotypes; Phenomics; Rice; Seedling vigour
Year of Publication2021
JournalGenomics
Journal citation113 (6), pp. 4227-4236
Digital Object Identifier (DOI)https://doi.org/10.1016/j.ygeno.2021.11.006
Open accessPublished as ‘gold’ (paid) open access
FunderBiotechnology and Biological Sciences Research Council
Funder project or codeGenetic improvement of rice seed vigour for dry direct-seeded conditions
Publisher's version
Output statusPublished
Publication dates
Online10 Nov 2021
Publication process dates
Accepted07 Nov 2021
ISSN0888-7543
PublisherAcademic Press Inc Elsevier Science

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