Association analysis identified superior haplotypes for improved salt stress tolerance in wheat (Triticum aestivum L.)Mendeley Data
Understanding genetic and molecular mechanisms regulating salt stress tolerance is crucial to develop salt resilient wheat cultivars. Here, we evaluated a genetically, phenotypically, and geographically diverse panel of 228 hexaploid spring wheat accessions, at US Salinity Laboratory, Riverside, CA,...
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Elsevier
2025-06-01
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| Series: | Plant Stress |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2667064X2500168X |
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| author | Santosh Gudi Harsimardeep S Gill Serena Collins Jatinder Singh Devinder Sandhu Sunish K Sehgal Upinder Gill Rajeev Gupta |
| author_facet | Santosh Gudi Harsimardeep S Gill Serena Collins Jatinder Singh Devinder Sandhu Sunish K Sehgal Upinder Gill Rajeev Gupta |
| author_sort | Santosh Gudi |
| collection | DOAJ |
| description | Understanding genetic and molecular mechanisms regulating salt stress tolerance is crucial to develop salt resilient wheat cultivars. Here, we evaluated a genetically, phenotypically, and geographically diverse panel of 228 hexaploid spring wheat accessions, at US Salinity Laboratory, Riverside, CA, using greenhouse lysimeter system with two irrigation treatments: control (electrical conductivity of irrigation water as deci-Siemens per meter., (ECiw = 1.46 dSm-1) and saline (ECiw = 14 dSm-1). Salt stress had pronounced negative impact on several seedling traits, reducing shoot height (17.5 %), root length (15.5 %), tiller number (43.8 %), shoot weight (44.6 %), and root weight (35.8 %). However, salt stress increased root length-by-shoot height (3.75 %) and root weight-by-shoot weight (28.02 %) ratios, highlighting greater adverse effects on shoots compared to roots. Based on phenotypic variations, contrasting lines with hypersensitive or highly tolerant response to salt stress were identified. Notably, salt-tolerant lines were mainly landraces originating from seashores, ocean banks, or coastal marshes, whereas salt-sensitive lines were either landraces collected from freshwater-irrigated regions or modern breeding lines. Multi-locus genome-wide association studies (GWAS) and linkage disequilibrium (LD)-based grouping identified 25 high-confidence quantitative trait loci (QTLs). Candidate gene mining from flanking QTL regions and expression analysis revealed eight putative genes associated with salt stress tolerance. Haplotype analysis identified superior haplotypes of genes encoding sodium symporter (TraesCS1B02G413800) and peptide transporter (TraesCS5A02G004400). Superior haplotypes are mainly present in landraces but often lost in modern cultivars due to artificial selection pressure during breeding. In summary, this study identified salt tolerant genotypes and associated genomic regions, providing invaluable resources for breeding programs aimed at developing salt-resilient wheat varieties. |
| format | Article |
| id | doaj-art-d8cbdde968cd47b5aff5f7b1032e8984 |
| institution | OA Journals |
| issn | 2667-064X |
| language | English |
| publishDate | 2025-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Plant Stress |
| spelling | doaj-art-d8cbdde968cd47b5aff5f7b1032e89842025-08-20T02:17:09ZengElsevierPlant Stress2667-064X2025-06-011610090010.1016/j.stress.2025.100900Association analysis identified superior haplotypes for improved salt stress tolerance in wheat (Triticum aestivum L.)Mendeley DataSantosh Gudi0Harsimardeep S Gill1Serena Collins2Jatinder Singh3Devinder Sandhu4Sunish K Sehgal5Upinder Gill6Rajeev Gupta7Edward T. Schafer Agricultural Research Center, USDA-ARS, Fargo, ND, USA; Department of Plant Pathology, North Dakota State University, Fargo, ND, USADepartment of Agronomy, Horticulture, and Plant Science, South Dakota State University, Brookings, SD, USAUS Salinity Laboratory (USDA-ARS), Riverside, CA, USADepartment of Plant Pathology, North Dakota State University, Fargo, ND, USAUS Salinity Laboratory (USDA-ARS), Riverside, CA, USADepartment of Agronomy, Horticulture, and Plant Science, South Dakota State University, Brookings, SD, USADepartment of Plant Pathology, North Dakota State University, Fargo, ND, USAEdward T. Schafer Agricultural Research Center, USDA-ARS, Fargo, ND, USA; Corresponding author.Understanding genetic and molecular mechanisms regulating salt stress tolerance is crucial to develop salt resilient wheat cultivars. Here, we evaluated a genetically, phenotypically, and geographically diverse panel of 228 hexaploid spring wheat accessions, at US Salinity Laboratory, Riverside, CA, using greenhouse lysimeter system with two irrigation treatments: control (electrical conductivity of irrigation water as deci-Siemens per meter., (ECiw = 1.46 dSm-1) and saline (ECiw = 14 dSm-1). Salt stress had pronounced negative impact on several seedling traits, reducing shoot height (17.5 %), root length (15.5 %), tiller number (43.8 %), shoot weight (44.6 %), and root weight (35.8 %). However, salt stress increased root length-by-shoot height (3.75 %) and root weight-by-shoot weight (28.02 %) ratios, highlighting greater adverse effects on shoots compared to roots. Based on phenotypic variations, contrasting lines with hypersensitive or highly tolerant response to salt stress were identified. Notably, salt-tolerant lines were mainly landraces originating from seashores, ocean banks, or coastal marshes, whereas salt-sensitive lines were either landraces collected from freshwater-irrigated regions or modern breeding lines. Multi-locus genome-wide association studies (GWAS) and linkage disequilibrium (LD)-based grouping identified 25 high-confidence quantitative trait loci (QTLs). Candidate gene mining from flanking QTL regions and expression analysis revealed eight putative genes associated with salt stress tolerance. Haplotype analysis identified superior haplotypes of genes encoding sodium symporter (TraesCS1B02G413800) and peptide transporter (TraesCS5A02G004400). Superior haplotypes are mainly present in landraces but often lost in modern cultivars due to artificial selection pressure during breeding. In summary, this study identified salt tolerant genotypes and associated genomic regions, providing invaluable resources for breeding programs aimed at developing salt-resilient wheat varieties.http://www.sciencedirect.com/science/article/pii/S2667064X2500168XGWASHaplotype analysisSalt stressSodium sequestrationK+/Na+ homeostasis |
| spellingShingle | Santosh Gudi Harsimardeep S Gill Serena Collins Jatinder Singh Devinder Sandhu Sunish K Sehgal Upinder Gill Rajeev Gupta Association analysis identified superior haplotypes for improved salt stress tolerance in wheat (Triticum aestivum L.)Mendeley Data Plant Stress GWAS Haplotype analysis Salt stress Sodium sequestration K+/Na+ homeostasis |
| title | Association analysis identified superior haplotypes for improved salt stress tolerance in wheat (Triticum aestivum L.)Mendeley Data |
| title_full | Association analysis identified superior haplotypes for improved salt stress tolerance in wheat (Triticum aestivum L.)Mendeley Data |
| title_fullStr | Association analysis identified superior haplotypes for improved salt stress tolerance in wheat (Triticum aestivum L.)Mendeley Data |
| title_full_unstemmed | Association analysis identified superior haplotypes for improved salt stress tolerance in wheat (Triticum aestivum L.)Mendeley Data |
| title_short | Association analysis identified superior haplotypes for improved salt stress tolerance in wheat (Triticum aestivum L.)Mendeley Data |
| title_sort | association analysis identified superior haplotypes for improved salt stress tolerance in wheat triticum aestivum l mendeley data |
| topic | GWAS Haplotype analysis Salt stress Sodium sequestration K+/Na+ homeostasis |
| url | http://www.sciencedirect.com/science/article/pii/S2667064X2500168X |
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