芸薹根肿菌蛋白磷酸酶组的鉴定及生物信息学分析

Identification and bioinformatics analysis of protein-phosphatome in Plasmodiophora brassicae

由蛋白激酶和蛋白磷酸酶调控的蛋白质可逆磷酸化是一种重要的蛋白质翻译后修饰,它在信号转导、细胞周期、基因转录、代谢调控等过程中起到至关重要的作用。本研究以芸薹根肿菌e3菌株的基因组为试验数据来源,采用生物信息学方法对芸薹根肿菌全基因组蛋白磷酸酶进行了鉴定和表达分析。基于隐马尔可夫模型(Hidden markov model,HMM)搜索与SMART分析相结合,本研究在芸薹根肿菌基因组中共鉴定出54个蛋白磷酸酶基因。编码的54个蛋白磷酸酶可以进一步被分成4类,包括10个磷酸化蛋白磷酸酶(PPP),21个金属离子依赖型蛋白磷酸酶(PPM),19个酪氨酸蛋白磷酸酶(PTP),4个基于天冬氨酸的蛋白磷酸酶(APP)。这54个蛋白磷酸酶的相对分子质量为10780~125140,等电点为4.43~10.45。通过信号肽和跨膜结构域分析发现在这54个蛋白磷酸酶中,PBRA_007461存在信号肽,PBRA_003636、PBRA_004449、PBRA_004464、PBRA_005270、PBRA_006854和PBRA_007201存在跨膜结构域。转录组分析结果表明这54个蛋白磷酸酶基因在不同时期差异表达,值得一提的是在休眠孢子萌发期和休眠孢子成熟期,金属离子依赖型蛋白磷酸酶基因PBRA_001085的表达量最高,说明该磷酸酶在休眠孢子发育中起到重要作用。综上所述,本研究可为芸薹根肿菌蛋白磷酸酶功能研究和根肿病防治靶标选择提供理论基础。

Reversible phosphorylation of proteins,regulated by protein kinases and protein phosphatases is an important post-translational modification,which plays a vital role in signal transduction,cell cycle,gene transcription and metabolic regulation.In this study,bioinformatics tools were used to analyze the protein sequences from Plasmodiophora brassicae e3 strain,and the identified protein phosphatase genes were further subjected to expression profiling analysis.Based on the combination of hidden markov model(HMM)search and SMART analysis,a total of 54 protein phosphatase genes were identified in the genome of P.brassicae.These 54 protein phosphatases could be further classified into four categories,including 10 phosphoprotein phosphatases(PPP),21 metal ion-dependent protein phosphatases(PPM),19 protein tyrosine phosphatases(PTP),four aspartate-based protein phosphatases(APP).The molecular weights of these 54 protein phosphatases ranged from 10780 to 125140,and the isoelectric points ranged from 4.43 to 10.45.The results of signal peptide and transmembrane domain analysis revealed that among 54 candidate protein phosphatases,PBRA_007461 had a signal peptide,and there were transmembrane domains in PBRA_003636,PBRA_004449,PBRA_004464,PBRA_005270,PBRA_006854 and PBRA_007201.Transcriptome analysis results showed that these 54 protein phosphatases genes were differentially expressed at different stages.Notably,the expression of the metal ion-dependent protein phosphatase gene PBRA_001085 was highest during the resting spore germination and the spore maturation period,indicating that it played an important role in resting spore development.In conclusion,this study can provide a theoretical basis for the characterization of protein phosphatases and development of novel strategies against clubroot.