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核桃SWEET基因家族鉴定和表达分析
Genome-Wide Identification and Expression Analysis of the SWEET Gene Family Juglans regia
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摘要: 为探讨SWEET基因家族在核桃中的分布和特征,基于74例核桃全基因组测序数据,利用生物信息学方法鉴定SWEET基因家族成员,通过系统发育、基因结构、保守基序和染色体定位分析其序列与结构特征。结果表明:在核桃中共鉴定到24个SWEET基因(JrSWEETs),可分为4个亚群,基因结构与保守基序在亚群内呈现较高保守性。染色体定位显示该家族成员不均匀分布于12条染色体上。共检测到15对重复基因,其中13对为片段复制;所有重复基因对的Ka/Ks值均小于1,表明进化中受到强烈的纯化选择。启动子分析发现与激素响应、逆境胁迫及光响应相关的顺式作用元件,RNA-seq 表达分析发现与果实发育和冷胁迫相关的基因;重测序群体遗传多态性分析检测到SWEET 基因的大量SNP。研究结果为深入研究核桃SWEET基因家族在核桃糖代谢及抗逆生物学功能中的作用提供了理论依据。Abstract: To investigate the distribution and characteristics of the Sugars Will Eventually Be Exported Transporters (SWEET) gene family in walnut (Juglans regia), we identified SWEET family members using bioinformatics approaches based on whole-genome sequencing data from 74 walnut accessions. Their sequence and structural features were characterized through phylogenetic analysis, gene structure examination, conserved motif prediction, and chromosomal localization. The results showed that a total of 24 SWEET genes (JrSWEETs) were identified in walnut, which could be classified into four subgroups. Gene structure and conserved motifs exhibited a high degree of conservation within each subgroup. Chromosomal localization analysis indicated that these genes are unevenly distributed across 12 chromosomes. A total of 15 duplicated gene pairs were detected, among which 13 pairs resulted from segmental duplication. The Ka/Ks values of all duplicated gene pairs were less than 1, suggesting that these genes have undergone strong purifying selection during evolution. Promoter analysis revealed the presence of cis-acting elements related to hormone responses, stress responses, and light responsiveness. RNA-seq expression analysis identified SWEET genes associated with fruit development and cold stress responses. In addition, population resequencing-based genetic polymorphism analysis detected numerous SNPs within SWEET genes. Collectively, our findings provide a theoretical basis for further functional studies on the roles of the SWEET gene family in sugar metabolism and stress resistance biology in walnut.
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