| 摘要: |
| 【目的】探明番茄（Solanum lycopersicum）中参与植物细胞K+转运的CHX（cation/H+ exchanger）基因家族的生物信息学功能，分析其对激素和非生物胁迫表达的响应。【方法】在NCBI网站选择番茄基因组,用拟南芥的CHX蛋白序列与番茄基因组数据库进行BLAST蛋白序列同源比对，并通过InterPro和SMART数据库进行保守结构域分析，获得番茄CHX基因。利用在线网站Expasy、SignalP-5.0和WoLF PSORT，对番茄CHX蛋白进行基本理化性质分析、信号肽预测和亚细胞定位预测。利用MEGA11软件构建系统进化树，使用MEME在线平台分析SlCHX蛋白的保守结构域和基序，用Plant CARE预测基因上游的顺式作用元件，并使用TBtools软件将结果可视化。利用公开的转录组数据分析SlCHX在番茄不同器官或组织的表达谱；以番茄品种‘Micor-Tom’为试验材料，使用脱落酸和茉莉酸甲酯进行激素胁迫处理，同时进行低温、黑暗、NaCl和PEG6000非生物胁迫处理，用实时荧光定量PCR检测番茄叶片SlCHX在激素和非生物胁胁迫下的表达量。【结果】鉴定得到22个番茄CHX基因家族成员(SlCHX1~SlCHX22)，分布于10条染色体上；22个SlCHX蛋白的氨基酸数目为576~860个，分子质量为62.858~94.394 ku，理论等电点为5.20~9.08，脂肪指数为104.59~124.29，均为疏水性蛋白；番茄CHX均定位于质膜，77.3%的成员未检测到信号肽。系统进化树分析表明，番茄、水稻和拟南芥的CHX家族成员可分为4组，各组中SlCHX蛋白数量分别为11，0，2和9个，多数SlCHX成员与水稻亲缘关系较近。基因结构分析结果显示，45.5%的番茄CHX基因家族成员具有2个内含子。顺式作用元件分析表明，SlCHX基因启动子区含有光、茉莉酸甲酯、脱落酸、分生组织表达及低温等响应元件；保守基序分析表明，番茄CHX家族含有10个保守基序。SlCHX家族大部分基因在番茄花蕾中的表达量最高。实时荧光定量PCR结果显示，SlCHX1、SlCHX14和SlCHX15在激素和非生物胁迫下表达量上调程度相对较高。【结论】从番茄CHX基因家族共鉴定获得22个成员，其可能参与花蕾发育的调控，其中SlCHX1、SlCHX14和SlCHX15基因可能参与番茄对激素和非生物胁迫的响应。 |
| 关键词: 番茄 CHX基因家族 生物信息学 基因表达 |
| DOI：10.13207/j.cnki.jnwafu.2025.04.006 |
| 分类号: |
| 基金项目:国家自然科学基金项目（32160703）；甘肃省重点研发计划项目（23YFNA0021）；甘肃农业大学青年导师扶持基金项目(GAU-QDFC-2022-03) |
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| Genome-wide identification and expression patten analysis of CHX gene family in tomato |
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ZHENG Yongqi, YAO Kangding, LI Ju, PAN Xuejuan, LÜ Jian, XIAO Xuemei, YU Jihua
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College of Horticulture,Gansu Agricultural University,Lanzhou,Gansu 730070,China
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| Abstract: |
| 【Objective】This research aimed to investigate the bioinformatic functions of the CHX (cation/H+ exchanger) gene family involved in K+transport in tomato (Solanum lycopersicum) cells and analyze their response to hormone and abiotic stress expression.【Method】The tomato genome was selected from the NCBI website,and the CHX protein sequences from Arabidopsis were used to perform BLAST protein sequence homology comparison with the tomato genome database.Conserved domain analysis was conducted with InterPro and SMART databases to identify tomato CHX genes.Basic physicochemical properties,signal peptide prediction,and subcellular localization of tomato CHX proteins were analyzed with online tools of Expasy,SignalP-5.0,and WoLF PSORT.A phylogenetic tree was constructed with MEGA11 software,and the conserved domains and motifs of SlCHX proteins were analyzed with the MEME online platform.Cis-acting elements upstream of the genes were predicted with Plant CARE,and the results were visualized with TBtools software.Public transcriptome data were used to analyze the expression profiles of CHX in different organs or tissues of tomato.The tomato variety Micro-Tom was used as the experimental material,subjected to hormone stress treatments with abscisic acid and methyl jasmonate,and abiotic stress treatments with low temperature,darkness,NaCl,and PEG6000.The expression levels of SlCHX in tomato leaves under hormone and abiotic stress were detected by real-time quantitative PCR.【Result】A total of 22 tomato CHX gene family members (SlCHX1-SlCHX22) were identified,and distributed on 10 chromosomes.The 22 SlCHX proteins were all hydrophobic proteins,with amino acid numbers ranging from 576 to 860,molecular mass from 62.858 to 94.394 ku,theoretical isoelectric points from 5.20 to 9.08,and aliphatic indexes from 104.59 to 124.29.Tomato CHXs were localized on the plasma membrane,with no signal peptides detected in 77.3% of the members.Phylogenetic tree analysis showed that the CHX family members of tomato,rice,and Arabidopsis could be divided into 4 groups,with the number of SlCHX proteins in each group being 11,0,2,and 9,respectively,and most SlCHX members being more closely related to rice.Gene structure analysis showed that 45.5% of the tomato CHX gene family members had 2 introns.Cis-acting element analysis indicated that the SlCHX gene promoters contained response elements for light,methyl jasmonate,abscisic acid,meristematic tissue expression,and low temperature.Conserved motif analysis showed that the tomato CHX family contained 10 conserved motifs.Most SlCHX genes showed the highest expression levels in flower buds.The results of real-time fluorescence quantitative PCR showed that the expression of SlCHX1,SlCHX14 and SlCHX15 was up-regulated to a relatively high extent under hormonal and abiotic stresses.【Conclusion】A total of 22 members of the tomato CHX gene family were identified,which may be involved in the regulation of bud development.Among them,SlCHX1,SlCHX14,and SlCHX15 genes may be involved in the response of tomato to hormone and abiotic stresses. |
| Key words: tomato CHX gene family bioinformatics gene expression |
