ArticlePloS one2018
Tolerance to mild salinity stress in japonica rice: A genome-wide association mapping study highlights calcium signaling and metabolism genes.
Article in PloS one, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers, 1 of them a synthesis that pooled it.
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Who cites it
24 citing papers in PubMed, 1 synthesis or guideline pooled it, 73 citations in OpenAlex.
- Salt tolerance involved candidate genes in rice: an integrative meta-analysis approach.BMC plant biology · 2020Pooled it
- Rice Adaptation to Abiotic Stresses Caused by Soil Inorganic Elements.International journal of molecular sciences · 2025Review
- Genome-wide association mapping for salinity recovery of rice seedlings grown in hydroponic and field conditions.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2025Article
- Haplotype-Based Genome-Wide Association Analysis Using Exome Capture Assay and Digital Phenotyping Identifies Genetic Loci Underlying Salt Tolerance Mechanisms in Wheat.Plants (Basel, Switzerland) · 2023Article
- Marker-Assisted Introgression of the Salinity Tolerance Locus Saltol in Temperate Japonica Rice.Rice (New York, N.Y.) · 2023Article
- Gene-by-environment interactions in plants: Molecular mechanisms, environmental drivers, and adaptive plasticity.The Plant cell · 2023Review
- Genomic selection for salinity tolerance in japonica rice.PloS one · 2023Article
- Salinity stress tolerance and omics approaches: revisiting the progress and achievements in major cereal crops.Heredity · 2022Review
- Integrated Multi-Omics Perspective to Strengthen the Understanding of Salt Tolerance in Rice.International journal of molecular sciences · 2022Review
- Genomics and transcriptomics to protect rice (Frontiers in plant science · 2022Review
- Unlocking Allelic Diversity for Sustainable Development of Salinity Stress Tolerance in Rice.Current genomics · 2021Review
- Genome-Wide Association Analysis of Salt-Tolerant Traits in Terrestrial Cotton at Seedling Stage.Plants (Basel, Switzerland) · 2021Article
- Genome-wide association mapping of sodium and potassium concentration in rice grains and shoots under alternate wetting and drying and continuously flooded irrigation.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- 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
- Genome-wide association of rice response to blast fungus identifies loci for robust resistance under high nitrogen.BMC plant biology · 2021Article
- Genome-Wide Association Study (GWAS) to Identify Salt-Tolerance QTLs Carrying Novel Candidate Genes in Rice During Early Vegetative Stage.Rice (New York, N.Y.) · 2021Article
- Article
- Integrative Approach for Precise Genotyping and Transcriptomics of Salt Tolerant Introgression Rice Lines.Frontiers in plant science · 2021Article
- Assessing Rice Salinity Tolerance: From Phenomics to Association Mapping.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Genome-Wide Association Mapping for Salt Tolerance of Rice Seedlings Grown in Hydroponic and Soil Systems Using the Bengal and Assam Aus Panel.Frontiers in plant science · 2020Article
Corrections and comments
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Authors and funding
15 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Salinity tolerance is an important quality for European rice grown in river deltas. We evaluated the salinity tolerance of a panel of 235 temperate japonica rice accessions genotyped with 30,000 SNP markers. The panel was exposed to mild salt stress (50 mM NaCl; conductivity of 6 dS m-1) at the seedling stage. Eight different root and shoot growth parameters were measured for both the control and stressed treatments. The Na+ and K+ mass fractions of the stressed plants were measured using atomic absorption spectroscopy. The salt treatment affected plant growth, particularly the shoot parameters. The panel showed a wide range of Na+/K+ ratio and the temperate accessions were distributed over an increasing axis, from the most resistant to the most susceptible checks. We conducted a genome-wide association study on indices of stress response and ion mass fractions in the leaves using a classical mixed model controlling structure and kinship. A total of 27 QTLs validated by sub-sampling were identified. For indices of stress responses, we also used another model that focused on marker × treatment interactions and detected 50 QTLs, three of which were also identified using the classical method. We compared the positions of the significant QTLs to those of approximately 300 genes that play a role in rice salt tolerance. The positions of several QTLs were close to those of genes involved in calcium signaling and metabolism, while other QTLs were close to those of kinases. These results reveal the salinity tolerance of accessions with a temperate japonica background. Although the detected QTLs must be confirmed by other approaches, the number of associations linked to candidate genes involved in calcium-mediated ion homeostasis highlights pathways to explore in priority to understand the salinity tolerance of temperate rice.
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