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人肠道病毒71型和柯萨奇病毒A16型B细胞线性表位的生物信息学预测 预览

A bioinformatics method for prediction of B cellular linear epitopes for human enterovirus 71 and Coxsackievirus A16
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摘要 发展了人肠道病毒B 细胞线性表位(简称线性表位)的生物信息学预测算法,系统性地预测和比较了人肠道病毒71 型(Enterovirus 71, EV71)和柯萨奇病毒A16 型(Coxsackievirus A16,CVA16)的线性表位.结果显示: EV71和CVA16结构蛋白(Viral Protein, VP)上都有16 个线性表位,2 种肠道病毒的线性表位的位置高度一致,但氨基酸序列保守性较低,大多数表位都存在至少3个氨基酸残基的差异,提示2 种病毒的线性表位具有血清型特异性,这很可能是两者不能交叉反应的原因.线性表位主要分布在β链之间的环上和C-末端,分别有13 个(81.3%)和2 个(12.5%)表位.与文献报道相比较, 16 个线性表位中,分别有6 个(37.5%) EV71 和12 个(75%) CVA16 的表位已被实验验证.特别是实验研究重点关注的VP1, 6 个预测表位中,分别有4 个(66.7%) EV71的预测表位和5 个(83.3%)CVA16 的预测表位已被实验所验证.说明算法具有较高的预测可靠度.线性表位的实验研究主要集中在VP1,预测结果提示VP2 和VP3 也能形成表位,应该加以重视.生物信息学算法通过预测和筛选潜在的线性表位,能够大大降低实验负荷,为包括EV71 和CVA16 在内的人肠道病毒的研究提供有力支持.对肠道病毒线性表位的预测,有助于更好地监测和预警手足口病疫情,辅助疫苗的研发和准备. A bioinformatics method was developed to predict the B cellular linear epitopes for human enteroviruses. The linear epitopes of enterovirus 71 (EV71) and coxsackievirus A16 (CVA16) were systematically predicted and compared. The results show that both EV71 and CVA16 had 16 linear epitopes in structural proteins (VPs). Although the positions of the epitopes were highly accordant, the homologies of the amino acid sequences were less conservative and there were at least three mutations for the majority of the epitopes. This implied that the epitopes were serotype-specific and caused the low titers of cross-reactivity. The loops between the β strands (13/16, 81.3%) and the C-terminals (2/16, 12.5%) were discovered as being enrichment of the epitopes. Among 16 epitopes, 6 (37.5%) of EV71 epitopes and 12 (75%) of CVA16 epitopes had been verified by the previously reported experiments. According to 6 predicted epitopes in VP1, 4 of EV71 (66.7%) and 5 of CVA16 (83.3%) had been verified respectively. The evidences showed that the bioinformatics prediction method was reliable. Since most of previous studies focused on the epitopes of VP1, the current studies suggested that more studies should focus on VP2 and VP3. The bioinformatics method could predict and filter the potential epitopes that would reduce the strength of the experiments. It may help the studies on human enteroviruses including EV71 and CVA16. Furthermore, the prediction of the linear epitopes of the enteroviruses could also support the surveillance and the early warning of the breaks of the hand, foot and mouth disease as well as the R&D and preparation of vaccines.
作者 高柳莺 祝苗 戎浩 董长征 GAO Liu-ying;ZHU Miao;RONG Hao;DONG Chang-zheng(Medical School,Ningbo University,Ningbo 315211,China)
机构地区 宁波大学医学院
出处 《宁波大学学报:理工版》 CAS 2019年第2期54-60,共7页 Journal of Ningbo University(Natural Science and Engineering Edition)
基金 浙江省基础公益研究计划项目(LGF18C060001) 浙江省教育厅科研项目(Y201533182) 宁波市自然科学基金(2018A610240) 宁波大学研究生科研创新基金 宁波大学大学生科研创新计划(2018SRIP1913,2018SRIP1916).
关键词 肠道病毒71 柯萨奇病毒A16 B 细胞线性表位 抗原表位 生物信息学 手足口病 enterovirus 71 (EV71) Coxsackievirus A16 (CVA16) B cellular linear epitopes antigenic epitopes bioinformatics hand, foot and mouth disease
作者简介 第一作者:高柳莺(1992-),女,浙江嘉兴人,在读硕士研究生,主要研究方向:生物信息学.E-mail:854709337@qq.com;通信作者:董长征(1978-),男,浙江丽水人,博士/副教授,主要研究方向:生物信息学.E-mail:dongchangzheng@nbu.edu.cn.
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  • 1吴玉章,朱锡华.一种病蛋白B细胞表位预测方法的建立[J].科学通报,1994,39(24):2275-2279. 被引量:66
  • 2何雅青,杨洪,李琳琳,谭洁,毛丽莎,阳帆,刘建军,吕星,周丽.深圳地区2001-2004年肠道病毒71型部分VP1区基因分析[J].病毒学报,2006,22(5):397-399. 被引量:17
  • 3Shih SR,Ho MS,Lin KH,et al. Genetic analysis of enterovirus 71 isolated from fatal and non-fatal cases of hand,foot and mouth disease during an epidemic in Taiwan, 1998 [ J]. Virus Res, 2000 , 68 (2) : 127-136. 被引量:1
  • 4Oem JK, Lee KN, Cho IS, et al. Identification and antigenic site analysis of foot-and-mouth disease virus from pigs and cattle in Korea [J].J Vet Sci,2005,6(2):117-124. 被引量:1
  • 5Gamier J, Gibrat JF, Robson B. GOR method for predicting protein secondary structure from amino acid sequence [ J ]. Methods Enzymol, 1996,266 ( 5 ) : 540 -553. 被引量:1
  • 6Hopp TP. Protein surface analysis methods for identifying antigenic determinants and other interaction sites [ J ]. J Irnmunol Methods, 1986,88 ( 1 ) : 1-18. 被引量:1
  • 7Kyte J, Doolittle RF. A simple method for displaying the hydropathic character of a protein[ J]. J Mol Biol, 1982,157 ( 1 ) : 105-132. 被引量:1
  • 8Karplus PA, Schultz GE. Prediction of chain flexibility in proteins [ J ]. Naturwissenchaften, 1985,72 (4) : 212-213. 被引量:1
  • 9Emini EA, Hughes JV,Perlow DS,et al. Induction of hepatitis A virus-neutralizing antibody by a virus-specific synthetic peptide[ J]. J Virol, 1985,55 (3) :836-839. 被引量:1
  • 10Jameson BA, Wolf H. The antigenic index: a novel algorithm for predicting antigenic determinants[ J]. Comput Appl Biosci, 1988,4 (1) :181-186. 被引量:1

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