花椒WRKY基因家族全基因组鉴定及其盐胁迫下表达分析OA
Genome-wide of the WRKY gene family in Zanthoxylum bungeanum and expression profiling under salt stress
[目的]WRKY转录因子是植物特有的调控蛋白,广泛参与调控植物的生长发育、胁迫响应及次生代谢过程.前人对花椒WRKY基因家族分析仅限于转录组层面,本研究在基因组水平上研究WRKY基因家族,为全面理解花椒WRKY基因功能提供理论依据.[方法]利用生物信息学方法,系统鉴定花椒基因组中的WRKY基因家族成员,并对其理化性质、进化关系、基因结构、保守基序、共线性、互作网络、密码子偏好性以及在响应盐胁迫的基因表达模式进行了全面分析.[结果]花椒基因组中共鉴定出289个WRKY基因(ZbWRKY1～ZbWRKY289),不均匀地分布于53条染色体上;系统进化分析将ZbWRKYs分为Ⅰ、Ⅱ、Ⅲ这3个亚家族,其中亚家族Ⅱ可进一步分为5个亚组;共线性分析揭示花椒WRKY基因与其它物种间呈现出"一对一"保守型及"一对多"扩增型两种主要的同源基因对模式;蛋白网络互作结果表明ZbWRKY蛋白之间存在复杂的相互作用,其中ZbWRKY109、ZbWRKY217以及ZbWRKY245与其它蛋白互作频繁;顺式作用元件分析表明ZbWRKY基因家族包含响应植物应激反应、植物激素、植物生长和发育相关的多种顺式作用元件;密码子偏好性分析显示花椒WRKY基因整体偏好性较强,主要受自然选择驱动,且其密码子第3位碱基显著偏好使用T与G.基于盐胁迫下的基因表达模式,共筛选出10个ZbWRKY基因在花椒响应盐胁迫过程中可能发挥正调控或者负调控作用.[结论]研究结果为了解花椒WRKY基因家族的进化和功能分化,以及进一步解析花椒WRKY基因的功能及调控机制奠定了重要基础.
[Objective]WRKY transcription factors are plant-specific regulatory proteins that extensively modulate plant growth,development,secondary metabolism,and response to environmental stressors.While previous studies on the Zanthoxylum bungeanum WRKY family were confined to the transcriptome level,this study performed a comprehensive genome-wide analy-sis to provide a theoretical framework for understanding the functional roles of WRKY genes in this species.[Methods]Using integrated bioinformatics approaches,we systematically identified WRKY gene family members within the Z.bungeanum ge-nome.We characterized their physicochemical properties,phylogenetic relationships,gene structures,conserved motifs,and codon usage bias.Furthermore,we investigated chromosomal distribution,synteny,protein-protein interaction(PPI)net-works,and expression patterns under salt stress.[Results]A total of 289 WRKY genes(ZbWRKY1 to ZbWRKY289)were identified and found to be unevenly distributed across 53 chromosomes.Phylogenetic analysis classified ZbWRKYs into three major subfamilies(I,II,and III),with subfamily II further partitioned into five subgroups.Synteny analysis revealed two pre-dominant orthologous patterns between Z.bungeanum and related species:"one-to-one"(conserved)and"one-to-many"(ex-panded).PPI network modeling highlighted complex functional associations,identifying ZbWRKY109,ZbWRKY217,and ZbWRKY245 as hub proteins with high connectivity.Analysis of Cis-acting elements indicated that ZbWRKY promoters are enriched with motifs responsive to biotic/abiotic stresses,phytohormones,and developmental signals.Additionally,codon us-age bias analysis revealed a strong preference for T and G at the third codon position,primarily driven by natural selection.Based on expression profiling,10 ZbWRKY genes were prioritized as candidate positive or negative regulators of salt stress tol-erance.[Conclusion]The study provided a comprehensive landscape of the evolution and functional diversification of the WRKY gene family in Z.bungeanum and established a foundation for future functional validation and molecular breeding for salt tolerance.
王海燕;张馨之;蒋晋豫;赵雅;刘玉林
陕西省林业科学院,陕西 西安 710002陕西省林业科学院,陕西 西安 710002陕西省林业科学院,陕西 西安 710002西北农林科技大学 林学院,陕西 杨凌 712100西北农林科技大学 林学院,陕西 杨凌 712100
农业科技
花椒WRKY基因家族生物信息学分析盐胁迫表达模式
Z.bungeanumWRKY gene familyBioinformatics analysisSalt stressExpression pattern analysis
《山西农业大学学报（自然科学版）》 2026 (1)
23-32,10
陕西省林业科技创新计划专项(SXLK2024-0211)
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