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李超群, 樊海宁, 张耀刚, 曹得萍. 细粒棘球绦虫延伸因子1生物信息学分析[J]. 中国公共卫生, 2017, 33(4): 607-610. DOI: 10.11847/zgggws2017-33-04-23
引用本文: 李超群, 樊海宁, 张耀刚, 曹得萍. 细粒棘球绦虫延伸因子1生物信息学分析[J]. 中国公共卫生, 2017, 33(4): 607-610. DOI: 10.11847/zgggws2017-33-04-23
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LI Chao-qun, FAN Hai-ning, ZHANG Yao-gang.et al, . Property and structure of elongation factor 1 in Echinococcus granulous,a bioinformatics analysis[J]. Chinese Journal of Public Health, 2017, 33(4): 607-610. DOI: 10.11847/zgggws2017-33-04-23
Citation: LI Chao-qun, FAN Hai-ning, ZHANG Yao-gang.et al, . Property and structure of elongation factor 1 in Echinococcus granulous,a bioinformatics analysis[J]. Chinese Journal of Public Health, 2017, 33(4): 607-610. DOI: 10.11847/zgggws2017-33-04-23
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细粒棘球绦虫延伸因子1生物信息学分析

Property and structure of elongation factor 1 in Echinococcus granulous,a bioinformatics analysis

    摘要
  • 摘要: 目的 利用生物信息学技术对细粒棘球绦虫的延伸因子1（EF-1）进行分析，探讨其诊断价值。方法 通过 Expasy系统预测EF-1的理化性质，使用DNAStar软件分析蛋白亲水性、柔性区域、抗原指数及表面可及性，利用ABCpred与IEDB软件综合预测B细胞线性抗原表位，通过DNAStar 软件预测T细胞表位，使用SOPMA软件预测二级结构，SWISS-MODEL 网站构建EF-1的三级结构，使用MEGA软件选择neighbor joining 法构建EF-1氨基酸序列的系统发育树。结果 EF-1基因序列全长1 412 bp，含有2个内含子；EF-1亲水性得分较高的区域为35~45、52~70、126~140、158~183、301~322、357~380、424~448；柔性区域为26~45、54~71、162~176、300~318、357~381、432~448；抗原性指数得分较高的区域分布与柔性区域一致；表面可及性得分较高的区域较少，主要分布在39~54、62~76、128~132、161~170、220~234、315~329、354~372、424~448；可能的B细胞线性表位的氨基酸序列为120~130、286~295、306~320、365~378；可能的优势性T细胞表位区域为34~48、164~177、222~244、280~290、321~330、396~407；EF-1的二级结构中α螺旋占32.81%、β折叠占22.54%、β转角占10.94%、无规则卷曲占33.71%；系统发育树结果表明多房棘球绦虫为一枝，其余聚于一枝，且内部形成许多梳齿状分枝。结论 得到4个可能形成B细胞表位的区域、6个优势性T细胞表位区域，EF-1具有较高的保守性，可作为免疫诊断和药物治疗靶点。

     

    Abstract: Objective To analyze the property and structure of elongation factor 1 (EF-1) in Echinococcus granulous with bioinformatics technology and to explore its value in diagnosis of echinococcosis.Methods Physicochemical property of EF-1 was predicted using Expasy system.Hydrophiloity plot,flexible regions,antigenic index,and surface accessibility were analyzed with DNAStar software.B cell linear antigen epitopes were forecasted with ABCpred and IEDB software.T cell antigen epitopes were forecasted with DNAStar software.The secondary and three-dimensional structure of EF-1 were determined using SOPMA software and SWISS-MODEL website separately.The phylogenetic tree for amino acid sequences of EF-1 was built with neighbor joining method of MEGA software.Results The whole gene of EF-1 was 1 412 bp in length,containing two introns.The high score areas of hydrophiloity plot were 35-45,52-70,126-140,158-183,301-322,357-380,and 424-448.The flexible regions were 26-45,54-71,162-176,300-318,357-381,and 432-448.The regions with high score of antigenic index were similar to the flexible regions.There were a few regions with the high score of surface accessibility,mainly locating at 39-54,62-76,128-132,161-170,220-234,315-329,354-372,and 424-448.The potential amino acids sequences of B cell linear epitopes were 120-130,286-295,306-320,and 365-378.The potential advantaged T cell epitope areas were 34-48,164-177,222-244,280-290,321-330,and 396-407.The proportions of secondary structure of EF-1 were 32.81% for α-helix,22.54% for β-sheet,accounted 10.94% for β-corner,and 33.71% for random coil,respectively.The constructed phylogenetic tree of EF-1 demonstrates a branch of Echinococcus multilocularis had its own branch and another branch with many internal dentate branches.Conclusion Four B cell epitopes and six advanted T cell epiopes of EF-1 were identified with the bioinformatics analysis and phylogenetic tree reveals that EF-1 is high conservative.These findings suggest that the epitopes of EF-1 in Echinococcus granulous could be adopted as targets for immunological diagnosis and drug treatment of echinococcosis.

     

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