黄瓜AQP基因家族的鉴定与生物信息学分析

  目的  深入研究黄瓜Cucumis sativus水通道蛋白(aquaporin, AQP)基因家族(CsAQP)的相关功能。  方法  通过全基因组分析技术鉴定其家族成员，对其蛋白质理化性质、系统进化关系、选择压力、基因结构、保守基序、顺式作用元件、蛋白质互作进行分析。  结果  黄瓜基因组共有33个AQP基因，含有2~5个数量不等的外显子，在染色体上不均匀分布；根据物种进化关系将黄瓜AQP基因家族划分为5个亚家族；基因组重复序列分析表明:5号和6号染色体上各有2~3对基因串联重复；计算这些基因的同义替换(synonymous, K_s)和非同义替换(nonSynonymous, K_a)的比率，结果显示均小于1，表明其进化受纯化选择作用；顺式作用调控元件分析发现，大部分基因启动子区所含元件与激素调节、光响应、胁迫密切相关。  结论  通过黄瓜全基因组扫描，获得黄瓜基因组的33个AQP家族成员，分属于5个亚族，映射于7条染色体上。上游启动子区含逆境相关作用元件，且部分基因参与串联复制，历经纯化选择。图6表4参26

Identification and bioinformatics analysis of AQP gene family in Cucumis sativus

  Objective  This study aims to explore the functions of aquaporin (AQP) gene family (CsAQP) in Cucumis sativus.   Method  The family members were identified by whole genome analysis, and their protein physical and chemical properties, phylogenetic relationships, selection pressure, gene structure, conserved motifs, cis-acting elements and protein interactions were analyzed.   Result  There were 33 AQP genes in C. sativus genome, which contained 2?5 exons and were unevenly distributed on chromosomes. According to the evolutionary relationship, the AQP gene family was divided into 5 subfamilies. Genome repeat analysis showed that there were 2?3 pairs of gene tandem repeats on chromosome 5 and 6 respectively. The ratios of synonymous substitution (K_s) and nonsynonymous substitution (K_a) of these genes were calculated. The results showed that they were less than 1, indicating that their evolution was affected by purification selection. The analysis of cis-acting regulatory elements showed that most of the elements in the gene promoter region were closely related to hormone regulation, light response, and stress resistance.   Conclusion  Through the whole genome scanning, 33 AQP family members are obtained from C. sativus genome, which belong to 5 subfamilies and map on 7 chromosomes. The upstream promoter region contains stress-related elements, and some genes participate in tandem replication and undergo purification selection. Ch, 6 fig. 4 tab. 26 ref.]