ArticleFrontiers in plant science2023
Integrating linkage mapping and comparative transcriptome analysis for discovering candidate genes associated with salt tolerance in rice.
Article in Frontiers in plant science, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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19 citing papers in PubMed, 21 citations in OpenAlex.
- Integrative linkage mapping and transcriptomic profiling uncover ozone-response modules in a peri-urban forest tree.G3 (Bethesda, Md.) · 2026Article
- Comparative Transcriptomic Analysis Reveals Salt Stress Adaptation Mechanisms in Cultivated Rice Varieties (Current issues in molecular biology · 2026Article
- Transcriptome Analysis Reveals Differences in Molecular Mechanisms Between Salt-Tolerant and Salt-Sensitive Rice (Current issues in molecular biology · 2025Article
- Genomics-assisted breeding for designing salinity-smart future crops.Plant biotechnology journal · 2025Review
- Genetic dissection of maize grain moisture content and dehydration rate using high-density bin mapping in a recombinant inbred line population.BMC plant biology · 2025Article
- The speed breeding technology of five generations per year in cotton.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Linkage Mapping and Identification of Candidate Genes for Cold Tolerance in Rice (Oryza Sativa L.) at the Bud Bursting Stage.Rice (New York, N.Y.) · 2025Article
- A comprehensive review on rice responses and tolerance to salt stress.Frontiers in plant science · 2025Review
- Regulatory mechanism analysis of signal transduction genes during rapeseed (Frontiers in plant science · 2025Article
- Mapping proteomic response to salinity stress tolerance in oil crops: Towards enhanced plant resilience.Journal, genetic engineering & biotechnology · 2024Review
- Integration Linkage Mapping and Comparative Transcriptome Analysis to Dissect the Genetic Basis of Rice Salt Tolerance Associated with the Germination Stage.International journal of molecular sciences · 2024Article
- Linkage Mapping and Discovery of Candidate Genes for Drought Tolerance in Rice During the Vegetative Growth Period.Rice (New York, N.Y.) · 2024Article
- Mapping and Omics Integration: Towards Precise Rice Disease Resistance Breeding.Plants (Basel, Switzerland) · 2024Review
- GWAS combined with linkage analysis reveals major QTLs and candidate genes of salt tolerance inFrontiers in plant science · 2024Article
- QTL-Seq identified a genomic region on chromosome 1 for soil-salinity tolerance in FFrontiers in plant science · 2024Article
- Joint QTL Mapping and Transcriptome Sequencing Analysis Reveal Candidate Genes for Salinity Tolerance inInternational journal of molecular sciences · 2023Article
- Comparative transcriptome analysis of gene responses of salt-tolerant and salt-sensitive rice cultivars to salt stress.Scientific reports · 2023Article
- Article
- Haplotype analysis and marker development of five salt-tolerant-related genes in rice (Frontiers in plant science · 2023Article
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Authors and funding
9 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Salinity is one of the most widespread abiotic stresses affecting rice productivity worldwide. Understanding the genetic basis of salt tolerance is key for breeding salt-tolerant rice varieties. Numerous QTLs have been identified to help dissect rice salt-tolerance genetic mechanisms, yet only rare genes located in significant QTLs have been thoroughly studied or fine-mapped. Here, a combination of linkage mapping and transcriptome profiling analysis was used to identify salt tolerance-related functional candidate genes underlying stable QTLs. A recombinant inbred line (RIL) population derived from a cross between Jileng 1 (salt-sensitive) and Milyang 23 (salt-tolerant) was constructed. Subsequently, a high-density genetic map was constructed by using 2921 recombination bin markers developed from whole genome resequencing. A total of twelve QTLs controlling the standard evaluation score under salt stress were identified by linkage analysis and distributed on chromosomes 2, 3, 4, 6, 8 and 11. Notably, five QTL intervals were detected as environmentally stable QTLs in this study, and their functions were verified by comparative transcriptome analysis. By comparing the transcriptome profiles of the two parents and two bulks, we found 551 salt stress-specific differentially expressed genes. Among them, fifteen DEGs located in stable QTL intervals were considered promising candidate genes for salt tolerance. According to gene annotations, the gene
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