ArticlePloS one2016
Mapping QTLs for Salt Tolerance in Rice (Oryza sativa L.) by Bulked Segregant Analysis of Recombinant Inbred Lines Using 50K SNP Chip.
Article in PloS one, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 papers.
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66 citing papers in PubMed.
- Regulatory networks and molecular mechanisms underlying salt stress tolerance in rice.Frontiers in plant science · 2026Review
- Article
- FScientific reports · 2025Article
- Molecular Alchemy: Converting Stress into Resilience via Secondary Metabolites and Calcium Signaling in Rice.Rice (New York, N.Y.) · 2025Review
- Omics-Driven Strategies for Developing Saline-Smart Lentils: A Comprehensive Review.International journal of molecular sciences · 2024Review
- Identification of Genomic Regions Associated with Differences in Flowering Time and Inflorescence Architecture betweenInternational journal of molecular sciences · 2024Article
- QTLs and Genes for Salt Stress Tolerance: A Journey from Seed to Seed Continued.Plants (Basel, Switzerland) · 2024Review
- Extreme trait GWAS (Et-GWAS): Unraveling rare variants in the 3,000 rice genome.Life science alliance · 2024Article
- Genome-wide association study of salt tolerance at the seed germination stage in lettuce.PloS one · 2024Article
- Comparative quantitative trait loci analysis framework reveals relationships between salt stress responsive phenotypes and pathways.Frontiers in plant science · 2024Article
- Integration of genome-wide association studies reveal loci associated with salt tolerance score of rice at the seedling stage.Journal of applied genetics · 2023Article
- Fine Mapping and Candidate Gene Analysis of Rice Grain Length QTLInternational journal of molecular sciences · 2023Article
- Article
- Identification of simple sequence repeat markers linked to heat tolerance in rice using bulked segregant analysis in FFrontiers in plant science · 2023Article
- Impacts of salinity stress on crop plants: improving salt tolerance through genetic and molecular dissection.Frontiers in plant science · 2023Review
- Identification of quantitative trait loci controlling nitrogen use efficiency-related traits in rice at the seedling stage under salt condition by genome-wide association study.Frontiers in plant science · 2023Article
- Article
- Salinity stress tolerance and omics approaches: revisiting the progress and achievements in major cereal crops.Heredity · 2022Review
- Identification of Genomic Regions Associated with Vine Growth and Plant Height of Soybean.International journal of molecular sciences · 2022Article
- Integrated Multi-Omics Perspective to Strengthen the Understanding of Salt Tolerance in Rice.International journal of molecular sciences · 2022Review
6 more citing papers are in PubMed but not listed here.
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Soil salinity is a major constraint to rice production in large inland and coastal areas around the world. Modern high yielding rice varieties are particularly sensitive to high salt stress. There are salt tolerant landraces and traditional varieties of rice but with limited information on genomic regions (QTLs) and genes responsible for their tolerance. Here we describe a method for rapid identification of QTLs for reproductive stage salt tolerance in rice using bulked segregant analysis (BSA) of bi-parental recombinant inbred lines (RIL). The number of RILs required for the creation of two bulks with extreme phenotypes was optimized to be thirty each. The parents and bulks were genotyped using a 50K SNP chip to identify genomic regions showing homogeneity for contrasting alleles of polymorphic SNPs in the two bulks. The method was applied to 'CSR11/MI48' RILs segregating for reproductive stage salt tolerance. Genotyping of the parents and RIL bulks, made on the basis of salt sensitivity index for grain yield, revealed 6,068 polymorphic SNPs and 21 QTL regions showing homogeneity of contrasting alleles in the two bulks. The method was validated further with 'CSR27/MI48' RILs used earlier for mapping salt tolerance QTLs using low-density SSR markers. BSA with 50K SNP chip revealed 5,021 polymorphic loci and 34 QTL regions. This not only confirmed the location of previously mapped QTLs but also identified several new QTLs, and provided a rapid way to scan the whole genome for mapping QTLs for complex agronomic traits in rice.
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