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Yuan G, Nong T, Hunpatin OS, Shi C, Su X, Xu F, Wang Y, Zhang Z, Ning Y, Liu H, Wang Q. Genome-wide identification of Shaker K + channel family in Nicotiana tabacum and functional analysis of NtSKOR1B in response to salt stress. FRONTIERS IN PLANT SCIENCE 2024; 15:1378738. [PMID: 38660442 PMCID: PMC11039879 DOI: 10.3389/fpls.2024.1378738] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/30/2024] [Accepted: 03/26/2024] [Indexed: 04/26/2024]
Abstract
Soil salinization poses a mounting global ecological and environmental threat. The identification of genes responsible for negative regulation of salt tolerance and their utilization in crop improvement through gene editing technologies emerges as a swift strategy for the effective utilization of saline-alkali lands. One efficient mechanism of plant salt tolerance is maintaining the proper intracellular K+/Na+ ratio. The Shaker K+ channels play a crucial role in potassium absorption, transport, and intracellular potassium homeostasis in plant cells. Here, the study presents the first genome-wide identification of Shaker K+ channels in Nicotiana tabacum L., along with a detailed bioinformatic analysis of the 20 identified members. Transcriptome analysis revealed a significant up-regulation of NtSKOR1B, an outwardly-rectifying member predominantly expressed in the root tissue of tobacco seedlings, in response to salt stress. This finding was then confirmed by GUS staining of ProNtSKOR1B::GUS transgenic lines and RT-qPCR analysis. Subsequently, NtSKOR1B knockout mutants (ntskor1) were then generated and subjected to salt conditions. It was found that ntskor1 mutants exhibit enhanced salt tolerance, characterized by increased biomass, higher K+ content and elevated K+/Na+ ratios in both leaf and root tissues, compared to wild-type plants. These results indicate that NtSKOR1B knockout inhibits K+ efflux in root and leaf tissues of tobacco seedlings under salt stress, thereby maintaining higher K+/Na+ ratios within the cells. Thus, our study identifies NtSKOR1B as a negative regulator of salt tolerance in tobacco seedlings.
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Affiliation(s)
- Guang Yuan
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
- Graduate School of Chinese Academy of Agricultural Sciences, Beijing, China
| | - Tongjia Nong
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
- Graduate School of Chinese Academy of Agricultural Sciences, Beijing, China
| | - Oluwaseyi Setonji Hunpatin
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
- Graduate School of Chinese Academy of Agricultural Sciences, Beijing, China
| | - Chuhan Shi
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
- Graduate School of Chinese Academy of Agricultural Sciences, Beijing, China
| | - Xiaoqing Su
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
- College of Agriculture, Qingdao Agricultural University, Qingdao, China
| | - Fangzheng Xu
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
| | - Yihui Wang
- China Tobacco Shandong Industrial Co., LTD Cigar Operation Center, Jinan, China
| | - Zhaoting Zhang
- Xuancheng City Xuanzhou District Tobacco Industry Development Center, Xuancheng, China
| | - Yang Ning
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
| | - Haobao Liu
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
| | - Qian Wang
- Tobacco Research Institute, Chinese Academy of Agricultural Sciences, Qingdao, China
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Nikraftar S, Ebrahimzadegan R, Majdi M, Mirzaghaderi G. Genome-wide analysis of the C2H2-ZFP gene family in Stevia rebaudiana reveals involvement in abiotic stress response. Sci Rep 2024; 14:6164. [PMID: 38486071 PMCID: PMC10940304 DOI: 10.1038/s41598-024-56624-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2024] [Accepted: 03/08/2024] [Indexed: 03/18/2024] Open
Abstract
Stevia (Stevia rebaudiana Bertoni) is a natural sweetener plant that accumulates highly sweet steviol glycosides (SGs) especially in leaves. Stevia is native to humid areas and does not have a high tolerance to drought which is the most serious abiotic stress restricting its production worldwide. C2H2 zinc finger proteins (C2H2-ZFPs) are a group of well-known transcription factors that involves in various developmental, physiological and biochemical activities as well as in response to abiotic stresses. Here we analyzed C2H2-ZFP gene family in stevia and identified a total of 185 putative SrC2H2-ZF proteins from the genome sequence of S. rebaudiana. We further characterized the identified C2H2-ZF domains and their organization, additional domains and motifs and analyzed their physicochemical properties, localization and gene expression patterns. The cis-element analysis suggested multiple roles of SrC2H2-ZFPs in response to light, phytohormone, and abiotic stresses. In silico analysis revealed that the stevia C2H2-ZFP genes are interactively expressed in different tissues and developmental stages and some C2H2-ZFP genes are involved in response to drought stress. This study provides a background for future exploration of the functional, and regulatory aspects of the C2H2-ZFP gene family in S. rebaudiana.
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Affiliation(s)
- Shahla Nikraftar
- Department of Plant Production and Genetics, Faculty of Agriculture, University of Kurdistan, P. O. Box 416, Sanandaj, Iran
| | - Rahman Ebrahimzadegan
- Department of Plant Production and Genetics, Faculty of Agriculture, University of Kurdistan, P. O. Box 416, Sanandaj, Iran
| | - Mohammad Majdi
- Department of Plant Production and Genetics, Faculty of Agriculture, University of Kurdistan, P. O. Box 416, Sanandaj, Iran
| | - Ghader Mirzaghaderi
- Department of Plant Production and Genetics, Faculty of Agriculture, University of Kurdistan, P. O. Box 416, Sanandaj, Iran.
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Chen J, Zhang L, Liu Y, Shen X, Guo Y, Ma X, Zhang X, Li X, Cheng T, Wen H, Qiao L, Chang Z. RNA-Seq-Based WGCNA and Association Analysis Reveal the Key Regulatory Module and Genes Responding to Salt Stress in Wheat Roots. PLANTS (BASEL, SWITZERLAND) 2024; 13:274. [PMID: 38256827 PMCID: PMC10818790 DOI: 10.3390/plants13020274] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2023] [Revised: 01/13/2024] [Accepted: 01/15/2024] [Indexed: 01/24/2024]
Abstract
Soil salinization is the main abiotic stressor faced by crops. An improved understanding of the transcriptional response to salt stress in roots, the organ directly exposed to a high salinity environment, can inform breeding strategies to enhance tolerance and increase crop yield. Here, RNA-sequencing was performed on the roots of salt-tolerant wheat breeding line CH7034 at 0, 1, 6, 24, and 48 h after NaCl treatment. Based on transcriptome data, a weighted gene co-expression network analysis (WGCNA) was constructed, and five gene co-expression modules were obtained, of which the blue module was correlated with the time course of salt stress at 1 and 48 h. Two GO terms containing 249 differentially expressed genes (DEGs) related to osmotic stress response and salt-stress response were enriched in the blue module. These DEGs were subsequently used for association analysis with a set of wheat germplasm resources, and the results showed that four genes, namely a Walls Are Thin 1-related gene (TaWAT), an aquaporin gene (TaAQP), a glutathione S-transfer gene (TaGST), and a zinc finger gene (TaZFP), were associated with the root salt-tolerance phenotype. Using the four candidate genes as hub genes, a co-expression network was constructed with another 20 DEGs with edge weights greater than 0.6. The network showed that TaWAT and TaAQP were mainly co-expressed with fifteen interacting DEGs 1 h after salt treatment, while TaGST and TaZFP were mainly co-expressed with five interacting DEGs 48 h after salt treatment. This study provides key modules and candidate genes for understanding the salt-stress response mechanism in wheat roots.
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Affiliation(s)
- Jiating Chen
- College of Agronomy, Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Shanxi Agricultural University, Taiyuan 030031, China; (J.C.); (X.Z.); (X.L.); (T.C.); (H.W.)
| | - Lei Zhang
- Department of Biology, Taiyuan Normal University, Taiyuan 030031, China;
| | - Yingxi Liu
- College of Agronomy, Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Shanxi Agricultural University, Taiyuan 030031, China; (J.C.); (X.Z.); (X.L.); (T.C.); (H.W.)
| | - Xinyao Shen
- College of Agronomy, Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Shanxi Agricultural University, Taiyuan 030031, China; (J.C.); (X.Z.); (X.L.); (T.C.); (H.W.)
| | - Yujing Guo
- College of Agronomy, Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Shanxi Agricultural University, Taiyuan 030031, China; (J.C.); (X.Z.); (X.L.); (T.C.); (H.W.)
| | - Xiaofei Ma
- Institute of Wheat Research, Shanxi Agricultural University, Linfen 041000, China
| | - Xiaojun Zhang
- College of Agronomy, Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Shanxi Agricultural University, Taiyuan 030031, China; (J.C.); (X.Z.); (X.L.); (T.C.); (H.W.)
| | - Xin Li
- College of Agronomy, Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Shanxi Agricultural University, Taiyuan 030031, China; (J.C.); (X.Z.); (X.L.); (T.C.); (H.W.)
| | - Tianling Cheng
- College of Agronomy, Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Shanxi Agricultural University, Taiyuan 030031, China; (J.C.); (X.Z.); (X.L.); (T.C.); (H.W.)
| | - Huiqin Wen
- College of Agronomy, Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Shanxi Agricultural University, Taiyuan 030031, China; (J.C.); (X.Z.); (X.L.); (T.C.); (H.W.)
| | - Linyi Qiao
- College of Agronomy, Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Shanxi Agricultural University, Taiyuan 030031, China; (J.C.); (X.Z.); (X.L.); (T.C.); (H.W.)
| | - Zhijian Chang
- College of Agronomy, Shanxi Key Laboratory of Crop Genetics and Molecular Improvement, Shanxi Agricultural University, Taiyuan 030031, China; (J.C.); (X.Z.); (X.L.); (T.C.); (H.W.)
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