Combined transcriptomic and metabolomic analyses elucidate key salt-responsive biomarkers to regulate salt tolerance in cotton

Han, Mingge; Cui, Ruifeng; Wang, Delong; Huang, Hui; Rui, Cun; Malik, Waqar Afzal; Wang, Jing; Zhang, Hong; Xu, Nan; Liu, Xiaoyu; Lei, Yuqian; Jiang, Tiantian; Sun, Liangqing; Ni, Kesong; Fan, Yapeng; Zhang, Yuexin; Wang, Junjuan; Chen, Xiugui; Lu, Xuke; Yin, Zujun; Wang, Shuai; Guo, Lixue; Zhao, Lanjie; Chen, Chao; Ye, Wuwei

doi:10.1186/s12870-023-04258-z

Cited by 16 publications

(4 citation statements)

References 63 publications

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“…Various studies have shown that plant hormones play a crucial role in regulating plants' adaptive growth under stress conditions. Transcriptomic and metabolomic analyses under salt stress in cotton have revealed that ABA is a key salt-responsive biomarker for salt tolerance [34]. Jasmonic acid (JA) also influences plant responses to non-biological stresses such as salt stress.…”

Section: Discussionmentioning

confidence: 99%

Functional Analysis of SmMYB39 in Salt Stress Tolerance of Eggplant (Solanum melongena L.)

Jiang

Shen

et al. 2023

Horticulturae

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Eggplant (Solanum melongena L.), a widely cultivated vegetable of the Solanaceae family, faces significant challenges in growth and yield due to soil salinization. This study aimed to investigate the functional role of the transcription factor SmMYB39 in salt stress tolerance in eggplant. This investigation was conducted through the utilization of bioinformatics analysis, quantitative real-time polymerase chain reaction (qRT-PCR), subcellular localization, validation of transcriptional activation activity, Virus-Induced Gene Silencing (VIGS), and protein interactome analysis. Bioinformatics analysis revealed that SmMYB39 has the closest relationship with SlMYB41, and its promoter contains multiple stress-responsive elements. qRT-PCR results demonstrated that SmMYB39 was significantly upregulated after 12 h of salt stress. Subcellular localization results indicated that the SmMYB39 protein is localized in the nucleus and exhibits transcriptional activation activity. Using VIGS, we observed that silencing of SmMYB39 led to reduced salt stress tolerance in eggplant. In addition, we have conducted research on the protein interactome of SmMYB39. In conclusion, our study demonstrates that SmMYB39 is a crucial transcription factor involved in salt stress response and has the potential to enhance salt tolerance in eggplant.

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Section: Discussionmentioning

confidence: 99%

Functional Analysis of SmMYB39 in Salt Stress Tolerance of Eggplant (Solanum melongena L.)

Jiang

Shen

et al. 2023

Horticulturae

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“…As a comparison, one control variety of Gossypium hirsutum (Zhong 9807) known for its high salt tolerance [ 105 ] was obtained from the gene bank of the Cotton Research Institute, Chinese Academy of Agricultural Sciences (CRI, CAAS) in Anyang (36.1 N, 114.33 E), Henan province, China. Professor Wuwei Ye identified the salt tolerance characteristics of the control variety Zhong 9807, which have been widely exploited in various research studies [ 106 , 107 , 108 ].…”

Section: Methodsmentioning

confidence: 99%

Comprehensive Evaluation and Transcriptome Analysis Reveal the Salt Tolerance Mechanism in Semi-Wild Cotton (Gossypium purpurascens)

Peng

Rehman

et al. 2023

IJMS

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Elevated salinity significantly threatens cotton growth, particularly during the germination and seedling stages. The utilization of primitive species of Gossypium hirsutum, specifically Gossypium purpurascens, has the potential to facilitate the restoration of genetic diversity that has been depleted due to selective breeding in modern cultivars. This investigation evaluated 45 G. purpurascens varieties and a salt-tolerant cotton variety based on 34 morphological, physiological, and biochemical indicators and comprehensive salt tolerance index values. This study effectively identified a total of 19 salt-tolerant and two salt-resistant varieties. Furthermore, transcriptome sequencing of a salt-tolerant genotype (Nayanmian-2; NY2) and a salt-sensitive genotype (Sanshagaopao-2; GP2) revealed 2776, 6680, 4660, and 4174 differentially expressed genes (DEGs) under 0.5, 3, 12, and 24 h of salt stress. Gene ontology enrichment analysis indicated that the DEGs exhibited significant enrichment in biological processes like metabolic (GO:0008152) and cellular (GO:0009987) processes. MAPK signaling, plant-pathogen interaction, starch and sucrose metabolism, plant hormone signaling, photosynthesis, and fatty acid metabolism were identified as key KEGG pathways involved in salinity stress. Among the DEGs, including NAC, MYB, WRKY, ERF, bHLH, and bZIP, transcription factors, receptor-like kinases, and carbohydrate-active enzymes were crucial in salinity tolerance. Weighted gene co-expression network analysis (WGCNA) unveiled associations of salt-tolerant genotypes with flavonoid metabolism, carbon metabolism, and MAPK signaling pathways. Identifying nine hub genes (MYB4, MYB105, MYB36, bZIP19, bZIP43, FRS2 SMARCAL1, BBX21, F-box) across various intervals offered insights into the transcriptional regulation mechanism of salt tolerance in G. purpurascens. This study lays the groundwork for understanding the important pathways and gene networks in response to salt stress, thereby providing a foundation for enhancing salt tolerance in upland cotton.

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“…Hence, it serves as a valuable material for investigating the molecular mechanisms underlying plant salt tolerance and isolating salt tolerance genes. These genes can offer insights into plants’ strategies for adapting to salt stress [ 25 , 26 , 27 ]. With the rapid advancement of cotton genome research, several functional genes involved in the response to salt stress have been identified [ 8 ].…”

Section: Introductionmentioning

confidence: 99%

Overexpression of GhGSTF9 Enhances Salt Stress Tolerance in Transgenic Arabidopsis

Li,

Liu,

et al. 2024

Genes

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Soil salinization is a major abiotic stress factor that negatively impacts plant growth, development, and crop yield, severely limiting agricultural production and economic development. Cotton, a key cash crop, is commonly cultivated as a pioneer crop in regions with saline-alkali soil due to its relatively strong tolerance to salt. This characteristic renders it a valuable subject for investigating the molecular mechanisms underlying plant salt tolerance and for identifying genes that confer salt tolerance. In this study, focus was placed on examining a salt-tolerant variety, E991, and a salt-sensitive variety, ZM24. A combined analysis of transcriptomic data from these cotton varieties led to the identification of potential salt stress-responsive genes within the glutathione S-transferase (GST) family. These versatile enzyme proteins, prevalent in animals, plants, and microorganisms, were demonstrated to be involved in various abiotic stress responses. Our findings indicate that suppressing GhGSTF9 in cotton led to a notably salt-sensitive phenotype, whereas heterologous overexpression in Arabidopsis plants decreases the accumulation of reactive oxygen species under salt stress, thereby enhancing salt stress tolerance. This suggests that GhGSTF9 serves as a positive regulator in cotton’s response to salt stress. These results offer new target genes for developing salt-tolerant cotton varieties.

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Combined transcriptomic and metabolomic analyses elucidate key salt-responsive biomarkers to regulate salt tolerance in cotton

Cited by 16 publications

References 63 publications

Functional Analysis of SmMYB39 in Salt Stress Tolerance of Eggplant (Solanum melongena L.)

Functional Analysis of SmMYB39 in Salt Stress Tolerance of Eggplant (Solanum melongena L.)

Comprehensive Evaluation and Transcriptome Analysis Reveal the Salt Tolerance Mechanism in Semi-Wild Cotton (Gossypium purpurascens)

Overexpression of GhGSTF9 Enhances Salt Stress Tolerance in Transgenic Arabidopsis

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