淮安市异性性传播途径感染HIV-1毒株的流行特征及分子进化研究
|
摘要
目的了解淮安市经异性性传播途径感染HIV-1流行毒株的流行特征、亚型分布及进化特点。方法以淮安籍HIV-1感染者为对象,收集相关流行病学资料,用巢式(RT-)PCR方法扩增env基因片段,测序并进行分子进化分析。结果淮安市经异性性传播途径感染的HIV-1基因亚型有5种,分别是CRF01_AE(53.68%,73/136)、CRF07_BC(18.38%,25/136)、CRF08_BC(0.09%,12/136)、B(14.71%,20/136)和A1(0.04%,6/136)。env基因的核苷酸同源性分析显示,淮安市流行毒株与广东、湖南、安徽、江苏分离株的同源性高。分子进化及遗传距离分析提示淮安市流行的CRF01_AE重组株分为2簇(Clade A和Clade B)。其中,Clade A的组内遗传距离在淮安市流行株HIV-1的各基因亚型中最大。同时发现,淮安市流行的CRF01_AE重组株的进化速率为3.82×10-3(95%HPD 3.49~4.18×10-3)替换/位点/年,tMRCA为14.3年。结论淮安市经异性性传播途径感染的HIV-1毒株存在多样性,CRF01_AE重组株是淮安市HIV-1的主要流行株,于1999年8月传入。
Objective To gain more insight into the epidemiologic characteristics,genotype,and evolutionary characteristics of HIV-1transmitted through heterosexual contact in Huai'an. Methods Samples of autochthonous confirmed cases of HIV-1infection in Huai'an were collected along with epidemiological information.HIV-1env genes were amplified from(RNA)DNA with nested(RT-)PCR and then sequenced.Sequences of the env gene fragments were aligned using the program Clustal X(version 1.8).The nucleotide identity of the sequences was determined using the MegAlign program Lasergene(version 7.1)and the genetic distance of the sequences was calculated with MEGA5.0.A phylogenetic tree was constructed with the program BEAST(version 1.75)using the Yang 96 model. Results HIV-1transmitted through heterosexual contact in Huai'an had the following genotypes:CRF01_AE(53.68 %,73/136),CRF07_BC(18.38%,25/136),CRF08_BC(0.09%,12/136),B(14.71%,20/136),and A1(0.04%,6/136).Comparison of the env gene sequences indicated that the HIV-1strains prevalent in Huai'an had a high level of nucleotide similarity to strains isolated in Guangdong,Hunan,Anhui,and Jiangsu.Phylogenetic analysis revealed that CRF01_AE was divided into two clades(Clade A and Clade B),with Clade A having the largest genetic distance among all of the genotypes prevalent in Huai'an.The mean substitution rate for the env gene of Huai'an isolates was 3.82×10-3 substitutions/site/year.The mean tMRCA estimated for Huai'an isolates was 14.3years before the present. Conclusion HIV-1transmitted through heterosexual contact in Huai'an was highly diverse.The major genotype of HIV-1was CRF01_AE,which was introduced into Huai'an in August 1999.
Objective To gain more insight into the epidemiologic characteristics,genotype,and evolutionary characteristics of HIV-1transmitted through heterosexual contact in Huai'an. Methods Samples of autochthonous confirmed cases of HIV-1infection in Huai'an were collected along with epidemiological information.HIV-1env genes were amplified from(RNA)DNA with nested(RT-)PCR and then sequenced.Sequences of the env gene fragments were aligned using the program Clustal X(version 1.8).The nucleotide identity of the sequences was determined using the MegAlign program Lasergene(version 7.1)and the genetic distance of the sequences was calculated with MEGA5.0.A phylogenetic tree was constructed with the program BEAST(version 1.75)using the Yang 96 model. Results HIV-1transmitted through heterosexual contact in Huai'an had the following genotypes:CRF01_AE(53.68 %,73/136),CRF07_BC(18.38%,25/136),CRF08_BC(0.09%,12/136),B(14.71%,20/136),and A1(0.04%,6/136).Comparison of the env gene sequences indicated that the HIV-1strains prevalent in Huai'an had a high level of nucleotide similarity to strains isolated in Guangdong,Hunan,Anhui,and Jiangsu.Phylogenetic analysis revealed that CRF01_AE was divided into two clades(Clade A and Clade B),with Clade A having the largest genetic distance among all of the genotypes prevalent in Huai'an.The mean substitution rate for the env gene of Huai'an isolates was 3.82×10-3 substitutions/site/year.The mean tMRCA estimated for Huai'an isolates was 14.3years before the present. Conclusion HIV-1transmitted through heterosexual contact in Huai'an was highly diverse.The major genotype of HIV-1was CRF01_AE,which was introduced into Huai'an in August 1999.
引文
[1]Holmes EC.On the origin and evolution of the human immunodeficiency virus(HIV)[J].Biol Rev Camb Philos Soc,2011,76(2):239-54.
[2]Brandon FK,Fran V,LI Y,et al.Chimpanzee reservoirs of pandemic and nonpandemic HIV-1[J].Science,2006,313(5786):523-6.
[3]Heeney JL,Dalgleish AG,Weiss RA.Origins of HIV and the evolution of resistance to AIDS[J].Science,2006,313(5786):462-6.
[4]Sharp PM,Hahn BH.Origins of HIV and the AIDS pandemic[J].Cold Spring Harb Perspect Med,2011,1(1):a006841.
[5]宁传艺,何翔,冯毅,等.中国HIV-1主要基因型分布和流行特征研究进展[J].中华预防医学杂志,2013,47(11):1060-2.
[6]Shao Y,Williamson C.The HIV-1Epidemic:low-to middle-income countries[J].Cold Spring Harb Perspect Med,2012,2(3):a007187.
[7]Xiang H,Hui X,Yuhua R,et al.A Comprehensive mapping of HIV-1genotypes in various risk groups and regions across china based on a nationwide molecular epidemiologic survey[J].Plos One,2012,7(10):e47289.
[8]胡锦流,吴丽萍,张兆辉,等.淮安市2000-2010年HIV/AIDS疫情流行病学分析[J].公共卫生与预防医学,2012,23(3):28-31.
[9]羊海涛,徐晓琴,邱涛,等.江苏省2006年新发现感染者的HIV-1分子流行病学研究[J].南京医科大学学报:自然科学版,2009,29(7):976-80.
[10]Wei H,Sui Y,Zhong W,et al.Systems mapping of HIV-1infection[J].Bmc Genetics,2012,13(2):256.
[11]Muldoon B,Theiler M,Gao J,et al.Timing the ancestor of the HIV-1pandemic strains[J].Science,2000,288(5472):1789-96.
[12]王佳丽,王静林,王育芳,等.云南省大理地区HIV感染者丙型肝炎病毒基因分型研究[J].中国病原生物学杂志,2014,9(2):131-4.
[13]贾玉玺,聂大平,陈凌娟,等.云南省龙陵县HIV阳性者感染弓形虫的SAG2基因位点分析[J].中国病原生物学杂志,2014,9(5):438-41.
[14]Joris H,Eleanor G,Ghys P D,et al.Global trends in molecular epidemiology of HIV-1during 2000-2007[J].Aids,2011,25(5):679-89.
[15]王尊付,吴健林,吴继周,等.艾滋病患者感染HIV-1病毒的gag、env和pol基因变异研究[J].中国病原生物学杂志,2014,9(6):512-5.
[16]王万海,明亮,姜树林,等.2005~2009年北京地区男男性接触者人群HIV1流行亚型及其变化趋势的研究[J].中国病原生物学杂志,2013,8(6):493-6.
[17]陈立力,刘永健,李韩平,等.我国部分地区HIV-1流行毒株亚型分布及gag基因变异特征研究[J].军事医学,2009,33(6):505-8.
[18]程春林,冯毅,何翔,等.中国南方四省区流行的HIV-1CRF01_AE病毒株基因特征研究[J].中华流行病学杂志,2009,30(7):720-5.
[19]李喆,杨尧,魏静,等.中国HIV-1B′亚型毒株不同基因区与全长基因组系统进化比较[J].病毒学报,2012,28(4):366-71.
[2]Brandon FK,Fran V,LI Y,et al.Chimpanzee reservoirs of pandemic and nonpandemic HIV-1[J].Science,2006,313(5786):523-6.
[3]Heeney JL,Dalgleish AG,Weiss RA.Origins of HIV and the evolution of resistance to AIDS[J].Science,2006,313(5786):462-6.
[4]Sharp PM,Hahn BH.Origins of HIV and the AIDS pandemic[J].Cold Spring Harb Perspect Med,2011,1(1):a006841.
[5]宁传艺,何翔,冯毅,等.中国HIV-1主要基因型分布和流行特征研究进展[J].中华预防医学杂志,2013,47(11):1060-2.
[6]Shao Y,Williamson C.The HIV-1Epidemic:low-to middle-income countries[J].Cold Spring Harb Perspect Med,2012,2(3):a007187.
[7]Xiang H,Hui X,Yuhua R,et al.A Comprehensive mapping of HIV-1genotypes in various risk groups and regions across china based on a nationwide molecular epidemiologic survey[J].Plos One,2012,7(10):e47289.
[8]胡锦流,吴丽萍,张兆辉,等.淮安市2000-2010年HIV/AIDS疫情流行病学分析[J].公共卫生与预防医学,2012,23(3):28-31.
[9]羊海涛,徐晓琴,邱涛,等.江苏省2006年新发现感染者的HIV-1分子流行病学研究[J].南京医科大学学报:自然科学版,2009,29(7):976-80.
[10]Wei H,Sui Y,Zhong W,et al.Systems mapping of HIV-1infection[J].Bmc Genetics,2012,13(2):256.
[11]Muldoon B,Theiler M,Gao J,et al.Timing the ancestor of the HIV-1pandemic strains[J].Science,2000,288(5472):1789-96.
[12]王佳丽,王静林,王育芳,等.云南省大理地区HIV感染者丙型肝炎病毒基因分型研究[J].中国病原生物学杂志,2014,9(2):131-4.
[13]贾玉玺,聂大平,陈凌娟,等.云南省龙陵县HIV阳性者感染弓形虫的SAG2基因位点分析[J].中国病原生物学杂志,2014,9(5):438-41.
[14]Joris H,Eleanor G,Ghys P D,et al.Global trends in molecular epidemiology of HIV-1during 2000-2007[J].Aids,2011,25(5):679-89.
[15]王尊付,吴健林,吴继周,等.艾滋病患者感染HIV-1病毒的gag、env和pol基因变异研究[J].中国病原生物学杂志,2014,9(6):512-5.
[16]王万海,明亮,姜树林,等.2005~2009年北京地区男男性接触者人群HIV1流行亚型及其变化趋势的研究[J].中国病原生物学杂志,2013,8(6):493-6.
[17]陈立力,刘永健,李韩平,等.我国部分地区HIV-1流行毒株亚型分布及gag基因变异特征研究[J].军事医学,2009,33(6):505-8.
[18]程春林,冯毅,何翔,等.中国南方四省区流行的HIV-1CRF01_AE病毒株基因特征研究[J].中华流行病学杂志,2009,30(7):720-5.
[19]李喆,杨尧,魏静,等.中国HIV-1B′亚型毒株不同基因区与全长基因组系统进化比较[J].病毒学报,2012,28(4):366-71.