ArticleTAG. Theoretical and applied genetics. Theoretische und angewandte Genetik2025
The molecular basis for cotton seedling response to salt stress based on genome-wide association study and transcriptome analysis.
Article in TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
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Who cites it
3 citing papers in PubMed.
- Cotton Seed Germination Under the Main Abiotic Stress: Physiological Mechanisms, Molecular Responses, and Agronomic Strategies.Plants (Basel, Switzerland) · 2026Review
- Multiple environmental test and genetic mapping jointly reveal genomic loci and associated genes underlying cotton Verticillium wilt resistance.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Genome-Wide Identification and Characterization of theInternational journal of molecular sciences · 2025Article
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Authors and funding
9 authors.
Funding
Abstract
key messageThis study identified 39 SNPs significantly associated with RSR and ST traits, associating to 36 functional genes responding to salt stress, through the joint analysis of GWAS and transcriptome under salt stress in cotton seedlings. These findings offered a molecular foundation for improving salt tolerance of cotton. Improving the survival rate of cotton seedlings under salt stress is a crucial breeding objective for the future. In this study, the GWAS of relative seedling emergence rate (RSR) and salt tolerance grade (ST) traits were operated on salt-stressed cotton seedlings of 373 upland cotton core collections, and identified 39 significantly associated SNPs comprised of 283 genes. Transcriptome sequencing of 18 samples from salt-tolerant and -sensitive variety groups screened out 11,624 long non-coding RNAs (lncRNAs) and 70,478 mRNAs from cotton seedlings under salt stress, including 453 differentially expressed lncRNAs and 6009 mRNAs. Joint analysis of GWAS and differentially expressed mRNAs revealed 36 salt responsive genes significantly associated with RSR and ST traits. VIGS assay further verified that Gh_D07G0886 negatively regulated and Gh_A13G0145 positively regulated the salt tolerance of cotton seedlings, which was consistent with their expression patterns in response to salt stress. These findings offered molecular foundation for improving salt tolerance of cotton.
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