ArticleBMC plant biology2019
Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage.
Article in BMC plant biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed, 85 citations in OpenAlex.
- Cotton Seed Germination Under the Main Abiotic Stress: Physiological Mechanisms, Molecular Responses, and Agronomic Strategies.Plants (Basel, Switzerland) · 2026Review
- Genome-wide association analysis of salinity tolerance-related loci in bread wheat (Triticum aestivum L.) at the germination stage.BMC plant biology · 2026Article
- Integrative Genome-Wide Association and Transcriptome Analyses Identify Candidate Genes for Salt Tolerance During Cotton Germination.Plants (Basel, Switzerland) · 2026Article
- Development of a Liquid-Phased Probe Array for Upland Cotton and Its Application in Cultivar Identification.Genes · 2025Article
- Integrated Transcriptomic and Metabolomic Analyses Reveal Key Responses of Cotton to Salt Stress Post-Germination.Current issues in molecular biology · 2025Article
- Genome-wide association study (GWAS) uncovers candidate genes linked to the germination performance of bread wheat (Triticum aestivum L.) under salt stress.BMC genomics · 2025Article
- Article
- Identification of Single Nucleotide Polymorphic Loci and Candidate Genes for Seed Germination Percentage in Okra under Salt and No-Salt Stresses by Genome-Wide Association Study.Plants (Basel, Switzerland) · 2024Article
- Multi-omics analysis of hexaploid triticale that show molecular responses to salt stress during seed germination.Frontiers in plant science · 2024Article
- Article
- Genome-wide association study of resistance to anthracnose in pepper (Capsicum chinense) germplasm.BMC plant biology · 2023Article
- Article
- Review
- Identification of novel candidate loci and genes for seed vigor-related traits in upland cotton (Frontiers in plant science · 2023Article
- Genome-wide identification and expression analysis of the HVA22 gene family in cotton and functional analysis ofFrontiers in plant science · 2023Article
- A Combination of a Genome-Wide Association Study and a Transcriptome Analysis Reveals circRNAs as New Regulators Involved in the Response to Salt Stress in Maize.International journal of molecular sciences · 2022Article
- Parental legacy versus regulatory innovation in salt stress responsiveness of allopolyploid cotton (Gossypium) species.The Plant journal : for cell and molecular biology · 2022Article
- Genome-wide association study reveals novel quantitative trait loci and candidate genes of lint percentage in upland cotton based on the CottonSNP80K array.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Review
- Identification of candidate genes involved in salt stress response at germination and seedling stages by QTL mapping in upland cotton.G3 (Bethesda, Md.) · 2022Article
- Quantitative and population genomics suggest a broad role of stay-green loci in the drought adaptation of sorghum.The plant genome · 2022Article
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Authors and funding
14 authors at 3 institutions in 1 country.
Funding
Abstract
backgroundSalinity is a major abiotic stress seriously hindering crop yield. Development and utilization of tolerant varieties is the most economical way to address soil salinity. Upland cotton is a major fiber crop and pioneer plant on saline soil and thus its genetic architecture underlying salt tolerance should be extensively explored.
resultsIn this study, genome-wide association analysis and RNA sequencing were employed to detect salt-tolerant qualitative-trait loci (QTLs) and candidate genes in 196 upland cotton genotypes at the germination stage. Using comprehensive evaluation values of salt tolerance in four environments, we identified 33 significant single-nucleotide polymorphisms (SNPs), including 17 and 7 SNPs under at least two and four environments, respectively. The 17 stable SNPs were located within or near 98 candidate genes in 13 QTLs, including 35 genes that were functionally annotated to be involved in salt stress responses. RNA-seq analysis indicated that among the 98 candidate genes, 13 were stably differentially expressed. Furthermore, 12 of the 13 candidate genes were verified by qRT-PCR. RNA-seq analysis detected 6640, 3878, and 6462 differentially expressed genes at three sampling time points, of which 869 were shared.
conclusionsThese results, including the elite cotton accessions with accurate salt tolerance evaluation, the significant SNP markers, the candidate genes, and the salt-tolerant pathways, could improve our understanding of the molecular regulatory mechanisms under salt stress tolerance and genetic manipulation for cotton improvement.
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