茄子TCP基因家族全基因组的鉴定与分析

Genome-wide identification and analysis of the TCP gene family in eggplant (Solanum melongena L.)

摘要:

TCP (teosinte branched1/cincinnata/proliferating cell factor)转录因子是植物特有转录因子家族，在植物整个生长发育过程中都有着很重要作用。目前，在茄子(Solanum melongena L.)中还没有关于TCP转录因子的相关报道。本研究利用生物信息学方法在茄子基因组数据库中鉴定出分布于11条染色体上的29个茄子TCP家族基因(eggplant TCP,SmTCP)。研究结果显示，该家族所有成员均含有编码TCP保守结构域的序列。这些成员氨基酸长度范围为201–538 aa，外显子数为1或2。亚细胞定位显示，有3个SmTCP (SmTCP02/03/21)蛋白位于细胞质中，其他SmTCP蛋白都位于细胞核中。系统发育树和序列特征分析均将29个SmTCP基因分成ClassⅠ(PCF)和ClassⅡ(CIN和CYC/TB1)两大类。共线性分析发现，17对(21个)SmTCP基因存在共线性关系，且这些存在共线性关系的基因都属于片段复制。基因表达模式分析显示，29个SmTCP基因家族成员在15个组织或器官中都有表达，但是不同成员的表达模式存在差异，其中CIN亚家族的4个基因(SmTCP18/19/20/25)在3个不同生长期的叶片中均较高表达。SmTCP启动子区域的顺式作用元件分析共发现4类顺式作用元件。本研究从多个角度分析了SmTCP基因分子基础，研究了TCP转录因子对茄子生长发育的影响，为茄子分子育种提供理论参考。

Abstract:

TCP (teosinte branched1/cincinnata/proliferating cell factor) is a group of plant-specific transcription factors that play important roles in plant growth and development. To date, there are no report about TCP transcription factors in eggplant (Solanum melongena L). In this study, twenty-nine eggplant TCP (SmTCP) family genes distributed on 11 chromosomes were identified from the genome database of eggplant using bioinformatics methods. The results showed that all members of the family contained sequences encoding TCP conserved domains with length of amino acids ranging from 201 to 538 and exon numbers of 1 or 2. Subcellular localization revealed that three SmTCP proteins (SmTCP02/03/21) were located in the cytoplasm and the other SmTCP proteins were located in the nucleus. The 29 TCP transcription factors were divided into ClassⅠ (PCF) and ClassⅡ (CIN and CYC/TB1) by phylogenetic tree and sequence analysis. Collinearity analysis showed that 17 pairs (21) of SmTCP genes had collinearity, and these collinearity genes belonged to segmental duplication. Analysis of gene expression patterns showed that all 29 members of SmTCP gene family were expressed in 15 tissues or organs, but the expression patterns were different. Among them, four gene (SmTCP18/19/20/25) of CIN subfamily were highly expressed in leaves at different growth stages. Analysis of cis-acting elements in the promoter region of SmTCP showed that there were four types of cis-acting elements, which were light response related cis-acting elements, growth and development related cis-acting elements, hormone response related cis-acting elements and stress related cis-acting elements. In summary, the molecular basis of SmTCP genes in eggplant and the influence of TCP gene on the growth and development of eggplant provided a theoretical basis for molecular breeding of eggplant.