GWAS analysis reveals a novel ERF family gene GH_A03G1754 in upland cotton under cold stress
Low temperature is a critical abiotic stress during the early growth stages of cotton, affecting crop establishment and causing yield reduction. A thorough insight into the genetic factors governing cold tolerance is critical for formulating breeding strategies aiming for enhanced cold-tolerance. Th...
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| Format: | Article |
| Language: | English |
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Elsevier
2025-09-01
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| Series: | Plant Stress |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2667064X25002003 |
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| author | Jianbin Li Xiaokang Feng Bangxin Chen Qian-Hao Zhu Xinyu Zhang Yonglin Yang Fei Xue Jie Sun |
| author_facet | Jianbin Li Xiaokang Feng Bangxin Chen Qian-Hao Zhu Xinyu Zhang Yonglin Yang Fei Xue Jie Sun |
| author_sort | Jianbin Li |
| collection | DOAJ |
| description | Low temperature is a critical abiotic stress during the early growth stages of cotton, affecting crop establishment and causing yield reduction. A thorough insight into the genetic factors governing cold tolerance is critical for formulating breeding strategies aiming for enhanced cold-tolerance. This study measured the primary root length (RL), fresh weight (FW), and dry weight (DW) of 343 upland cotton (Gossypium hirsutum L.) germplasm under sustained low-temperature stress during the seedling stage. The single nucleotide polymorphisms (SNPs) identified based on resequencing of the 343 accessions were used in a genome-wide association analysis of the three traits, which identified two, six and eight SNPs significantly associated with RL, FW, and DW, respectively. Two major loci on chromosomes A03 and D04 contributing to FW- and DW-based cold tolerance were evident due to their occurrence in at least two datasets. Within these two loci, multiple genes were found to be cold responsive, with GH_A03G1754 being a potentially positive contributor of cold tolerance, because silencing the gene in cold-tolerant variety reduced its cold tolerance. This study provides molecular markers and candidate gene for molecular breeding of cold tolerance in cotton. |
| format | Article |
| id | doaj-art-276290cd7e4842f8b07c5516d079514b |
| institution | Kabale University |
| issn | 2667-064X |
| language | English |
| publishDate | 2025-09-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Plant Stress |
| spelling | doaj-art-276290cd7e4842f8b07c5516d079514b2025-08-23T04:49:31ZengElsevierPlant Stress2667-064X2025-09-011710093210.1016/j.stress.2025.100932GWAS analysis reveals a novel ERF family gene GH_A03G1754 in upland cotton under cold stressJianbin Li0Xiaokang Feng1Bangxin Chen2Qian-Hao Zhu3Xinyu Zhang4Yonglin Yang5Fei Xue6Jie Sun7The Key Oasis Eco-Agriculture Laboratory of Xinjiang Production and Construction Group, College of Agriculture, Shihezi University, Shihezi, Xinjiang 832000, ChinaThe Key Oasis Eco-Agriculture Laboratory of Xinjiang Production and Construction Group, College of Agriculture, Shihezi University, Shihezi, Xinjiang 832000, ChinaThe Key Oasis Eco-Agriculture Laboratory of Xinjiang Production and Construction Group, College of Agriculture, Shihezi University, Shihezi, Xinjiang 832000, ChinaCSIRO Agriculture and Food, GPO Box 1700, Canberra 2601, AustraliaThe Key Oasis Eco-Agriculture Laboratory of Xinjiang Production and Construction Group, College of Agriculture, Shihezi University, Shihezi, Xinjiang 832000, ChinaShihezi Academy of Agricultural Sciences, Shihezi, Xinjiang 832000, ChinaThe Key Oasis Eco-Agriculture Laboratory of Xinjiang Production and Construction Group, College of Agriculture, Shihezi University, Shihezi, Xinjiang 832000, China; Corresponding authors.The Key Oasis Eco-Agriculture Laboratory of Xinjiang Production and Construction Group, College of Agriculture, Shihezi University, Shihezi, Xinjiang 832000, China; Corresponding authors.Low temperature is a critical abiotic stress during the early growth stages of cotton, affecting crop establishment and causing yield reduction. A thorough insight into the genetic factors governing cold tolerance is critical for formulating breeding strategies aiming for enhanced cold-tolerance. This study measured the primary root length (RL), fresh weight (FW), and dry weight (DW) of 343 upland cotton (Gossypium hirsutum L.) germplasm under sustained low-temperature stress during the seedling stage. The single nucleotide polymorphisms (SNPs) identified based on resequencing of the 343 accessions were used in a genome-wide association analysis of the three traits, which identified two, six and eight SNPs significantly associated with RL, FW, and DW, respectively. Two major loci on chromosomes A03 and D04 contributing to FW- and DW-based cold tolerance were evident due to their occurrence in at least two datasets. Within these two loci, multiple genes were found to be cold responsive, with GH_A03G1754 being a potentially positive contributor of cold tolerance, because silencing the gene in cold-tolerant variety reduced its cold tolerance. This study provides molecular markers and candidate gene for molecular breeding of cold tolerance in cotton.http://www.sciencedirect.com/science/article/pii/S2667064X25002003Upland cottonSeedling stageLow temperature stressGenome-wide association |
| spellingShingle | Jianbin Li Xiaokang Feng Bangxin Chen Qian-Hao Zhu Xinyu Zhang Yonglin Yang Fei Xue Jie Sun GWAS analysis reveals a novel ERF family gene GH_A03G1754 in upland cotton under cold stress Plant Stress Upland cotton Seedling stage Low temperature stress Genome-wide association |
| title | GWAS analysis reveals a novel ERF family gene GH_A03G1754 in upland cotton under cold stress |
| title_full | GWAS analysis reveals a novel ERF family gene GH_A03G1754 in upland cotton under cold stress |
| title_fullStr | GWAS analysis reveals a novel ERF family gene GH_A03G1754 in upland cotton under cold stress |
| title_full_unstemmed | GWAS analysis reveals a novel ERF family gene GH_A03G1754 in upland cotton under cold stress |
| title_short | GWAS analysis reveals a novel ERF family gene GH_A03G1754 in upland cotton under cold stress |
| title_sort | gwas analysis reveals a novel erf family gene gh a03g1754 in upland cotton under cold stress |
| topic | Upland cotton Seedling stage Low temperature stress Genome-wide association |
| url | http://www.sciencedirect.com/science/article/pii/S2667064X25002003 |
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