Genetic factors underlying anaerobic germination in rice: Genome-wide association study and transcriptomic analysis.

Autor: Thapa R; Dep. of Soil and Crop Sciences, Texas A&M Univ., College Station, TX, 77843, USA.; Section of Plant Breeding and Genetics, School of Integrative Plant Sciences, Cornell Univ., Ithaca, NY, 14853, USA., Tabien RE; Texas A&M AgriLife Research Center, Beaumont, TX, 77713, USA., Thomson MJ; Dep. of Soil and Crop Sciences, Texas A&M Univ., College Station, TX, 77843, USA., Septiningsih EM; Dep. of Soil and Crop Sciences, Texas A&M Univ., College Station, TX, 77843, USA.
Jazyk: angličtina
Zdroj: The plant genome [Plant Genome] 2024 Mar; Vol. 17 (1), pp. e20261. Date of Electronic Publication: 2022 Sep 28.
DOI: 10.1002/tpg2.20261
Abstrakt: The success of rice (Oryza sativa L.) germination and survival under submerged conditions is mainly determined by the rapid growth of the coleoptile to reach the water surface. Previous reports have shown the presence of genetic variability within rice accessions in the levels of flooding tolerance during germination or anaerobic germination (AG). Although many studies have focused on the physiological mechanisms of oxygen stress, few studies have explored the breadth of natural variation in AG tolerance-related traits in rice. In this study, we evaluated the coleoptile lengths of a geographically diverse rice panel of 241 accessions, including global accessions along with elite breeding lines and released cultivars from the United States, under the normal and flooded conditions in laboratory and greenhouse environments. A genome-wide association study (GWAS) was performed using a 7K single-nucleotide polymorphism (SNP) array and the phenotypic data of normal coleoptile length, flooded coleoptile length, flooding tolerance index, and survival at 14 d after seeding (DAS). Out of the 30 significant GWAS quantitative trait loci (QTL) regions identified, 14 colocalized with previously identified candidate genes of AG tolerance, whereas 16 were potentially novel. Two rice accessions showing contrasting phenotypic responses to AG stress were selected for the transcriptomics study. The combined approach of GWAS and transcriptomics analysis identified 77 potential candidate genes related to AG tolerance. The findings of our study may assist rice improvement programs in developing rice cultivars with robust tolerance under flooding stress during germination and the early seedling stage.
(© 2022 The Authors. The Plant Genome published by Wiley Periodicals LLC on behalf of Crop Science Society of America.)
Databáze: MEDLINE
Externí odkaz: