硫酸盐还原细菌类LuxR家族调控蛋白生物信息学分析

doi:10.14088/j.cnki.issn0439-8114.2022.24.037

湖北农业科学 ›› 2022, Vol. 61 ›› Issue (24): 177-184.doi: 10.14088/j.cnki.issn0439-8114.2022.24.037

硫酸盐还原细菌类LuxR家族调控蛋白生物信息学分析

陈伟, 刘晓艳, 朱镭

湖北省农业科学院湖北省生物农药工程研究中心/国家生物农药工程技术研究中心/湖北省农业科技创新中心生物农药分中心,武汉 430064

收稿日期:2022-09-29 出版日期:2022-12-25 发布日期:2023-01-18
通讯作者: 朱镭（1984-）,男,湖北武汉人,助理研究员,博士,主要从事微生物菌剂创制和机制研究,（电话）13517286805（电子信箱）zhulei@nberc.com。
作者简介:陈伟（1969-）,男,广东汕头人,高级农艺师,主要从事微生物农药及其开发研究,（电话）13387552412（电子信箱）chenwei@nberc.com。
基金资助:
国家自然科学基金项目（31900058）; 湖北省农业科学院青年科学基金项目（2020NKYJJ17）

Bioinformatics analysis of LuxR family regulatory proteins of sulfate-reducing bacteria class

CHEN Wei, LIU Xiao-yan, ZHU Lei

Hubei Biopesticide Engineering Research Center/National Biopesticide Engineering Technology Research Center/Biopesticide Branch Center of Hubei Agricultural Science and Technology Innovation Center, Hubei Academy of Agricultural Sciences,Wuhan 430064,China

Received:2022-09-29 Online:2022-12-25 Published:2023-01-18

摘要/Abstract

摘要： 以SRB研究模式菌株Desulfovibrio vulgaris Hildenborough为研究对象,对参与生物被膜的形成、调控的群体感应系统相关基因进行分析,发现3个潜在的类LuxR家族调控因子基因citB1、citB2和citB3,对其编码的蛋白质序列进行了生物信息学分析。结果表明,citB1基因编码216个氨基酸,citB2基因编码227个氨基酸,citB3基因编码215个氨基酸,彼此之间氨基酸一致性在28.99%~37.79%。3个蛋白质序列均含有N端信号接收保守结构域和C端LuxR家族DNA结合调控保守结构域,二级结构主要为α螺旋和无规则卷曲。同源性比对分析发现,3个蛋白在DNA结合调控保守结构域序列较为保守,而在信号接收结构域变异较大,推测可能与接受不同信号分子有关。系统发育分析表明,CitB1和CitB3蛋白发挥的信号接收方式、下游基因调控功能在SRB群体中可能具有普遍性,CitB2蛋白的信号接收方式及基因调控可能具有特异性。结果表明,SRB中可能存在新型群体感应信号接收及调控机制。

关键词: 硫酸盐还原细菌, 群体感应, 调控基因, 生物信息学

Abstract: The SRB research model strain Desulfovibrio vulgaris Hildenborough was used to analyze the genes related to the population sensing system involved in the formation and regulation of biofilm, and three potential LuxR-like family regulator genes citB1, citB2 and citB3 were identified, and the protein sequences encoded by them were analyzed bioinformatically. The results showed that citB1 gene encoded 216 amino acids, citB2 gene encoded 227 amino acids and citB3 gene encoded 215 amino acids, with amino acid identity between them ranging from 28.99% to 37.79%. All three protein sequences contained conserved structural domains for N-terminal signal reception and C-terminal LuxR family DNA binding regulation, and the secondary structures were mainly α-helix and irregularly curled. The homology analysis revealed that the sequences of the three proteins were more conserved in the DNA-binding regulatory conserved structural domain, while they were more variable in the signal-receiving structural domain, presumably related to the acceptance of different signaling molecules. Phylogenetic analysis showed that the signal reception mode and downstream gene regulation function of CitB1 and CitB3 proteins might be universal in SRB population, while the signal reception mode and gene regulation of CitB2 protein might be specific. The results suggested that novel population-sensing signal reception and regulation mechanisms might exist in SRB.

Key words: sulfate-reducing bacteria, population sensing, regulatory genes, bioinformatics

中图分类号:

Q756

陈伟, 刘晓艳, 朱镭. 硫酸盐还原细菌类LuxR家族调控蛋白生物信息学分析[J]. 湖北农业科学, 2022, 61(24): 177-184.

CHEN Wei, LIU Xiao-yan, ZHU Lei. Bioinformatics analysis of LuxR family regulatory proteins of sulfate-reducing bacteria class[J]. HUBEI AGRICULTURAL SCIENCES, 2022, 61(24): 177-184.

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硫酸盐还原细菌类LuxR家族调控蛋白生物信息学分析

Bioinformatics analysis of LuxR family regulatory proteins of sulfate-reducing bacteria class

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