| 引用本文: | 李文芳,陈佰鸿,毛娟,马宗桓,杨世茂.葡萄BRX基因家族生物信息学分析[J].生物信息学,2015,13(3):158-164. |
| LI Wenfang,CHEN Baihong,MAO Juan,MA Zonghuan,YANG Shimao.Bioinformatics analysis of the BRXgene family in grape[J].Chinese Journal of Bioinformatics,2015,13(3):158-164. |
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| 摘要: |
| BRX基因家族是一类植物特有的转录因子家族,在拟南芥中参与调节根细胞的增殖与伸长。利用生物信息学方法对葡萄基因组中存在的BRX基因家族进行了电子克隆,并对其进行了基因组的定位、蛋白质的结构、理化性质、二级结构及亚细胞定位的预测与分析,并对其与其它植物进化的亲缘关系进行了研究。基因组定位结果发现:葡萄基因组中6个BRX基因集中分布在3条染色体上,其中VvBRX1和VvBRX2分布在第2条染色体上,VvBRX3和VvBRX4分布在第9条染色体上,VvBRX5和VvBRX6分布在第11条染色体上；编码蛋白的氨基酸数目为360~560个,VvBRX5 的相对分子量(61 884.4)和理论等电点(9.38)均最大,而VvBRX1 的相对分子量(40 239.1)和理论等电点(6.23)均最小。研究显示,不同成员间氨基酸数目、氨基酸序列间存在一定的差异,但都为疏水性蛋白；α-螺旋和无规则卷曲为6个BRX氨基酸序列的主要组成部分；均不存在跨膜域及信号肽。基因结构分析表明,6个BRX基因都含有外显子和内含子结构。亚细胞定位分析表明:6个VvBRX基因均定位于细胞核。系统进化分析结果表明,VvBRX1、VvBRX2基因与胡杨的亲缘关系最近,相似性达96%；VvBRX3、VvBRX4与蓖麻、麻疯树、柑橘、可可、大豆聚为一类,说明其进化关系较近；VvBRX5与其它VvBRX基因明显分开；VvBRX6基因与莲的亲缘关系最近。试验结果为葡萄BRX 基因家族的克隆和功能分析奠定了一定的研究基础。 |
| 关键词: 葡萄 BRX基因家族 生物信息学分析 |
| DOI：10.3969/j.issn.1672-5565.2015.03.03 |
| 分类号:S663.1;Q343.1 |
| 基金项目:甘肃省农牧厅农业科技创新项目(GNCX-2013-38)；甘肃省自然基金(1308RJYA062)；国家自然科学基金(31460500)。 |
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| Bioinformatics analysis of the BRXgene family in grape |
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LI Wenfang, CHEN Baihong, MAO Juan, MA Zonghuan, YANG Shimao
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(College of Horticulture, Gansu Agricultural University, Lanzhou 730070,China)
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| Abstract: |
| BRXgene family is a class of transcriptional factors that present only in plant, and it plays an important role in the regulation of cell proliferation and root elongation in Arabidopsis. With the approaches of bioinformatics, BRXgene family present in the grape genome was performed in silico cloning, genome localization, protein structure, physical and chemical characteristics, secondary structure as well as subcellular localization prediction and analysis. Moreover, the evolutionary relationships of BRXgene family derived from other plants were predicted. Genome mapping results showed that: 6 BRXgenes in grape genome were located on 3 chromosomes, VvBRX1 and VvBRX2 in chromosome 2, VvBRX4 and VvBRX3 in chromosome 9, VvBRX6 and VvBRX5 in chromosome 11. The encoded proteins contain 360-560 amino acids, the relative molecular weight (61 884.4) and the pI value (9.38) of VvBRX5 were the maximum, while the relative molecular weight (40 239.1) and the pI value (6.23) of VvBRX1 were the minimum. The study suggested that there were some differences between the amino acid sequences of different members, while they all were hydrophobic proteins. The 6 BRX amino acid sequences mainly contain alpha helix and random coil and did not have transmembrane domains and signal peptide. Gene structure analysis showed that the 6 BRXgenes contained exons and introns structure. Subcellular localization analysis showed that six VvBRXgenes are located in nucleus. Phylogenetic analysis showed that VvBRX1 and VvBRX2 had the closest relationship with populus euphratica, the homology was 96%. VvBRX3 and VvBRX4 were clustered a class with Ricinus communis, Jatropha curcas, Citrus sinensis, Theobroma cacao andGlycine max,indicating that the evolutionary relationships were very closer. VvBRX5 was significantly separated from other VvBRXgenes. VvBRX6 had the closest relationship with Nelumbo nucifera. These experimental results provide a significant foundation for further research on function analysis of the BRXgene family in grape genome. |
| Key words: Grapevine BRXgene family Bioinformatics analysis |
