[1]王巍杰,吴丹,王金朋.大豆油脂储存蛋白的生物信息学分析[J].大豆科学,2016,35(02):234-238.[doi:10.11861/j.issn.1000-9841.2016.02.0234]
　WANG Wei-jie,WU Dan,WANG Jin-peng.Bioinformatics Analysis of Storage Oil Protein in Soybean[J].Soybean Science,2016,35(02):234-238.[doi:10.11861/j.issn.1000-9841.2016.02.0234]
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大豆油脂储存蛋白的生物信息学分析

《大豆科学》[ISSN:1000-9841/CN:23-1227/S] 卷: 第35卷 期数: 2016年02期 页码: 234-238 栏目: 出版日期: 2016-03-20
Title:
Bioinformatics Analysis of Storage Oil Protein in Soybean
作者:
王巍杰; 吴丹; 王金朋
华北理工大学 生命科学学院，河北 唐山 063000
Author(s):
WANG Wei-jie;  WU Dan;  WANG Jin-peng
College of Life Science, North China University of Science and Technology, Tangshan 063000, China
关键词:
大豆; 油脂储存; 生物信息
Keywords:
Soybean; Storage oil; Bioinformatics
DOI:
10.11861/j.issn.1000-9841.2016.02.0234
文献标志码:
A
摘要:
大豆种子含油量高低和油脂合成途径密切相关，油脂合成途径复杂，涉及诸多蛋白和酶，为此对大豆油脂储存蛋白进行生物信息学分析。大豆全基因组数据下载于JGI 数据库，生物数据库查询结合Perl程序处理获取大豆油脂储存基因和蛋白，在大豆基因组中确定1 264个与油脂合成相关的基因，其中23个基因与油脂储存有密切的联系。利用Protparam、SOPMA、ProtComp、SignalP软件对23个基因的蛋白序列、蛋白基本理化性质及二级结构、亚细胞定位、信号肽等进行生物信息学分析。结果表明：23个油脂储存基因不均匀分布在12条染色体上；23个蛋白序列氨基酸数目为165~1 012个；等电点为5.90~10.03；外显子数目为5~16个；二级结构预测显示无规则卷曲和α-螺旋为主要构成成分；蛋白亚细胞定位主要位于内质网、质膜和胞外。用MEGA6软件内置的Clustal W程序对大豆中油脂储存基因的蛋白序列进行比对分析，采用邻接法（neighbor-joining，NJ）构建系统发育树，结果显示大豆油脂储存基因的亲缘关系和进化差异。
Abstract:
There are closed relationships between the quantity of oil storage and oil synthesis pathway in soybean seed, oil synthesis pathway is complicated process involved in many proteins and enzymes. Storage oil proteins, one of the important proteins, were analyzed by bioinformatics method in the paper.The genome of soybean was download from JGI database, the storage oil gene and related proteins were obtained by database searches and Perl program data mining, 23 genes closely related to oil storage were identified from 1 264 storage oil genes in soybean.By using software such as Protparam, SOPMA, ProtComp and SignalP, the features of protein sequences, physical and chemical properties, secondary structure, subcellular location, and signal peptide were analyzed.Bioinformatics analysis indicated that 23 oil storage genes maps unevenly on 12 soybean chromosomes. Twenty-three oil storage proteins vary in compositions of amino acid (165 and 1 012), isoelectric points (5.90 and 10.03), and exons (5 and 16). Secondary structure prediction results showed that alpha helix and random coil were common structures. Those proteins were located on endoplasmic reticulum, plasmalemma and extracellular.Phylogenetic tree were constructed by neighbor-joining methods basing on the multiple sequences alignments of Clustal W provided by MEGA6 software. Analysis of phylogenetic tree showed that the relationships of 23 storage oil genes and their differences in revolutionary history.

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备注/Memo

第一作者简介：王巍杰（1967-），女，教授，硕导，主要从事生物质应用和生物信息研究。E-mail: weijiewang@yahoo.com。

更新日期/Last Update: 2016-04-11