ArticleAnnals of botany2020
A GWAS approach to find SNPs associated with salt removal in rice leaf sheath.
Article in Annals of botany, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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7 citing papers in PubMed, 11 citations in OpenAlex.
- Article
- Identification of Candidate Genes for Salt Tolerance at the Seedling Stage Using Integrated Genome-Wide Association Study and Transcriptome Analysis in Rice.Plants (Basel, Switzerland) · 2023Article
- Genome-Wide Association Study Reveals a Genetic Mechanism of Salt Tolerance Germinability in Rice (Frontiers in plant science · 2022Article
- QTL analysis for sodium removal ability in rice leaf sheaths under salinity using an IR-44595/318 FFrontiers in plant science · 2022Article
- Gene Mapping, Cloning and Association Analysis for Salt Tolerance in Rice.International journal of molecular sciences · 2021Review
- Genome-Wide Association Mapping of Salinity Tolerance at the Seedling Stage in a Panel of Vietnamese Landraces Reveals New Valuable QTLs for Salinity Stress Tolerance Breeding in Rice.Plants (Basel, Switzerland) · 2021Article
- Tissue-specific expression analysis of NaBMC plant biology · 2020Article
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Authors and funding
11 authors at 3 institutions in 2 countries.
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No grant is acknowledged in the PubMed record.
Abstract
BACKGROUND AND
aimsThe ability for salt removal at the leaf sheath level is considered to be one of the major mechanisms associated with salt tolerance in rice. Thus, understanding the genetic control of the salt removal capacity in leaf sheaths will help improve the molecular breeding of salt-tolerant rice varieties and speed up future varietal development to increase productivity in salt-affected areas. We report a genome-wide association study (GWAS) conducted to find single nucleotide polymorphisms (SNPs) associated with salt removal in leaf sheaths of rice.
methodsIn this study, 296 accessions of a rice (Oryza sativa) diversity panel were used to identify salt removal-related traits and conduct GWAS using 36 901 SNPs. The sheath:blade ratio of Na+ and Cl- concentrations was used to determine the salt removal ability in leaf sheaths. Candidate genes were further narrowed via Gene Ontology and RNA-seq analysis to those whose putative function was likely to be associated with salt transport and were up-regulated in response to salt stress. KEY
resultsFor the association signals of the Na+ sheath:blade ratio, significant SNPs were found only in the indica sub-population on chromosome 5. Within candidate genes found in the GWAS study, five genes were upregulated and eight genes were downregulated in the internal leaf sheath tissues in the presence of salt stress.
conclusionsThese GWAS data imply that rice accessions in the indica variety group are the main source of genes and alleles associated with Na+ removal in leaf sheaths of rice under salt stress.
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