罗布麻CesA基因家族的生物信息学分析

Bioinformatics analysis of Apocynum venetum CesA gene family

关键词:  罗布麻,纤维发育,生物信息学分析,CesA基因家族,生长发育

Key words:  Apocynum venetum, fiber development, bioinformatics analysis, CesA gene family, growth and development

摘要:

植物体中纤维素是细胞壁形成的主要成分,不仅参与细胞形态的建成,调控细胞发育,还参与细胞内多种细胞信号转导途径,进而影响植物体的生长发育。纤维素合酶是植物体合成纤维素的主要酶类。为了探究CesA基因家族对罗布麻生长发育及纤维素合成的调控机理,该文通过生物信息学分析方法,从基因家族鉴定、结构分析、蛋白理化性质与多级结构预测、亚细胞定位、信号肽、进化关系和顺式作用元件等方面,对罗布麻CesA基因家族进行系统鉴定和分子特征分析。结果表明:基于全基因组测序,罗布麻CesA基因家族鉴定含有15个成员,分布在罗布麻11条染色体中的8条上,其编码蛋白的氨基酸数量为730～1158,相对分子质量81280.81～130123.18kDa,理论等电点6.18～8.83。除了AvCesA3、AvCesA5、AvCesA7、AvCesA10和AvCesA11蛋白为稳定蛋白,其余成员均为不稳定蛋白;除了AvCesA12蛋白为疏水性蛋白,其余成员均为亲水性蛋白。该家族成员包含3～14个外显子,8～15个保守基序。编码蛋白主要分布于质膜与高尔基体上,无信号肽,二级结构以无规则卷曲与α-螺旋为主要构成元件。AvCesA15蛋白的跨膜结构域和三级结构与其他成员存在显著不同。罗布麻CesA基因进化时主要受纯化选择作用。对上游1500bp区域顺式作用元件分析,结果显示罗布麻CesA基因受到光、温度、水分、氧气等环境因子及生长素、赤霉素、脱落酸、乙烯、水杨酸等植物激素调控。该研究为进一步探究罗布麻CesA基因家族的生物学功能、提高纤维品质与品种改良奠定理论基础。

Abstract:

Cellulose is the main component of the cell wall in plants. It is not only participates in cell morphology and development, but also participates in various cellular signaling transduction pathways in cells, so as to affect the growth and development of plants. Cellulose synthase is the main enzyme used to synthesize cellulose in plants. Here, we explore the regulatory mechanism of the CesA gene family for cellulose synthesis, growth and development in Apocynum venetum. Using bioinformatic methods, we conducted systematic identification and molecular characterization of A. venetum CesA gene family which include gene family member identification, structural analysis, protein physicochemical properties and multi-level structure prediction, subcellular localization, signal peptides, evolutionary relationships, cis-acting elements. The results were as follows: Based on whole-genome sequencing, the A. venetum CesA gene family contained 15 members, which were distributed on 8 of the 11 A. venetum chromosomes. These family proteins were encoded by 730-1 158 amino acids, with the molecular weight at 81 280.81-130 123.18 kDa and theoretical isoelectric point at 6.18-8.83. Among these proteins, AvCesA3, AvCesA5, AvCesA7, AvCesA10 and AvCesA11 proteins were stable proteins, the rest of the members were unstable proteins. Except for AvCesA12 protein as a hydrophobic protein, the remaining members were hydropathicity proteins. Members of this family contained 3-14 exons and 8-15 conserved motifs. The encoded proteins were mainly distributed on the plasma membrane and the Golgi apparatus, without a clear signal peptide. The secondary structure was mainly composed of random coils and α-helices. The transmembrane domained and tertiary structure of AvCesA15 protein were significantly different from other members. Evolutionary selection of A. venetum CesA gene was mainly affected by purification selection. The analysis of cis-acting elements in the upstream 1 500 bp region showed that these gene might be regulated by environmental factors such as light, temperature, water, oxygen and plant hormones such as auxin, gibberellin, abscisic acid, ethylene, salicylic acid, and so on. This study lays a theoretical foundation for further exploring the biological function of CesA gene family and improving fiber quality and variety of A. venetum.