海南省艾滋病分子流行病学研究
详细信息    本馆镜像全文|  推荐本文 |  |   获取CNKI官网全文
摘要
自从艾滋病传入我国以来在我国的传播速度日益增长,范围越来越广。西南边疆是我国艾滋病流行最早的地区,也是我国艾滋病检测的重点地区,但与其邻近的海南岛的流行特点尚没有被大家所认识。为了研究海南省HIV-1流行的病原学以及传播特征,我们于2007年3月抽样采集了一批HIV-1感染者及部分感染者配偶的血样本,对这些样本进行了病原学与免疫学的检测和分子流行病学的分析。
     自1990年以来,海南省CDC在全岛开展了近五十万人份的HIV血清学调查,迄今共检出HIV感染者五百余人(检出率约为0.1%)。我们在全省主要疫情的市县进行抽样调查,共采集96份血样本,经检测其中88份为HIV-1感染样本。免疫学指标显示CD4~+细胞计数平均值士标准差为(303±230)细胞/μl,血浆HIV-1病毒载量几何平均值±标准误为(37810±40958)copies/ml,二者呈负相关关系(r~2=0.27,P<0.001)。HIV-1感染者同时感染了乙型或丙型肝炎病毒的人分别占61%和69%。在分子流行病分析方面,我们扩增出83名HIV-1阳性的感染者体内病毒的POL及ENV基因片段,结果显示海南省艾滋病流行状况有以下几个特点:1.总体上低流行,特定人群和局部地区高流行的态势。2.HIV-1人群的感染方式主要为两种,一是通过静脉吸毒,占主要地位(64%),主要分布在儋州、乐东、东方、三亚等沿海地区,病毒亚型以CRF01_AE重组亚型占绝对优势(100%);二是异性性传播(33%),散在分布,亚型分布呈多样化,包括CRF01_AE、B、B'、C和CRF08_BC。3.海南省最主要的病毒亚型为CRF01_AE重组亚型,主要在静脉吸毒者及其性伴侣之间传播,形成了一个庞大的传播群。其次为B'亚型(9.6%),此外还有C亚型(2.4%)、B亚型(1.2%)、CRF08_BC(1.2%)以及1例CRF01_AE/B'重组亚型。4.根据最大似然法(ML)的计算结果(bootstrap值是在重复了1000次的基础上得到的),以bootstrap values>98%,average branch lengths<0.015为判断标准,在83个HIV-1感染者中,有66人(79.5%)分属于4个大小不同的传播群,传播群1最大,有59人,传播群2有3个人,传播群3和4各有2个人。
     我们对83个扩增出的POL基因片段作了耐药性突变的分析,结果显示所有人均未发现与蛋白酶抑制剂相关的主突变,但均有次突变。部分次突变位点在B(B')亚型病毒与CRF01_AE重组亚型之间存在明显差异:M36I(0%vs 100%,p<0.01),L63P(100%vS 23%,p<0.01),A71T(44%vs 1%,p<0.01),V77I(89%vs 1%,p<0.01)。在有关逆转录酶抑制剂的突变方面,进行抗病毒治疗人群中20%发现了主突变。主突变位点为:D67N、K70N、F116Y、Q151M、M184V、K101E/H/N/Q、V106L、Y181C、和G190A。
     总的来看,海南省艾滋病疫情虽然仍处于低流行状况,但已进入增长期。由于存在庞大的传播群尤其是我国仍有近80%的病原携带者尚未检出(潜在庞大的传染原),如不及时实施有效的干预,极易造成艾滋病的扩散流行。因此要把握艾滋病从高危人群向一般人群传播的关键时期,加强针对各类高危人群的干预工作,加大宣传力度。同时要扩大监测范围和人群类别,及早采取相应的对策,遏止艾滋病的进一步传播蔓延。
To investigate the genetic background of HIV-1 strains in Hainan Province of South China we performed an HIV serological study and molecular epidemiological study based on blood samples of volunteers collected in March,2007.Of 96 volunteers, accounting for 18%of total Hainan samples,88 were confirmed to be infected with HIV-1.The peripheral blood CD4 T cell counts(mean±SD,3034±230 cells/μl) have inverse correlation to the plasma viral loads(geometric mean±SE,37,810±40,958 RNA copies/ml,P<0.001).61%and 69%of total 88 persons were infected with HBV or HCV respectively.83 pol and env sequences were successfully amplified respectively. Phylogenetic analysis was conducted for each new sequenceindividually.The result is as
     follow:1.Low prevalence of HIV was detected in Haina Province.But high morbidity was detected in special crowd in some area.2.As many as 64%of HIV-1-infected persons were injecting drug users(IDUs).Most of them live in west and south littoral. All IDUs with AIDS are infected with subtype CRF01_AE HIV.33%(29/88) of HIV-1-infected cases acquired the virus by heterosexual transmission.Subtype CRF01_AE,B,B',C,CRF_08BC was infected by heterosexual transmission.3.The most important subtype is CRF01_AE.Transmission of CRF01_AE by both heterosexual contacts and IDU formed a huge transmission cluster.We also identified other subtype including B'(9.6%),C(2.4%),B(1.2%),CRF08_BC(1.2%) and a new recombination of CRF01_AE/B'.4.The existence of transmission clusters was determined using the statistical robustness of the ML topologies assessed by high bootstrap values(>98%) with 1000 resamplings and short branch lengths(genetic distances<0.015%) of HIV-1 pol gene sequences.Of the 83 pol sequences analysis,66(80%) segregated into 4 clusters having sequence similarity based on the established criteria.Cluster 1 has 59 persons forming a big one.
     To understand the prevalence and distribution of HIV-1 drug resistant genotypes,we conducted a study on the 83 persons infected with HIV.Although primary protease resistance mutations were not found in all 83 persons,secondary mutations are found in each person.The frequencies of protease secondary mutations were found to be significantly different between subtype B and CRF01_AE strains:M36I(0%vs 100%, p<0.01 ),L63P(100%vs 23%,p<0.01),A71T(44%vs 1%,p<0.01),V77I(89%vs I%,p<0.01 ).Of the 83 persons,10(12%) have already received antiretroviral therapy (ART).As for the reverse transcriptase,20%(2/10) of 10 person with ART have primary resistance mutations,i.e.D67N,K70N,F116Y,Q151M,M184V,K101E/H/N/Q,V106L, Y181C,G190A.
     Taken together,our finding shows that injecting drug transmission is becoming a major risk for current HIV outbreaks in Hainan province.Given that nearly 80%of people with HIV-1 infection are undiagnosed in China,the very large number of undiagnosed persons with advanced(high viremia) HIV-1 infection may represent a major source leading to new nationwide HIV outbreaks.Multisectoral responses are needed and more needs to be done to increase understanding and support from revevant agencies.An enhanced HIV/AIDS education is urgently needed to reduce the stigma.Our findings demonstrated that some drug resistant HIV-1 strains have been emerging overtime since the initiation of antiretroviral therapy.And the resistance strains might have transmitted in a group of people.Since there are only limited drug regimens available to patients in China,the antiretroviral therapy management should be strengthened.
引文
1.国务院防治艾滋病工作委员会办公室,联合国艾滋病中国专题组.中国艾滋病防治联合评估报告(2007)[R].2007:
    2.Zhang Kl,K.L.and Ma,S.J.Epidemiology of HIV in China[J].Bmj,2002,324(7341):803-4.
    3.曹韵贞,张梅珊,李莉,高明,丁怡,蔡卫平.高效抗逆转录病毒治疗15例人类免疫缺陷病毒感染者一年总结[J].中华内科杂志,2002,41(2):109-113.
    4.Chen,J.,Young,N.L.,Subbarao,S.,Warachit,P.,Saguanwongse,S.,Wongsheree,S.,Jayavasu,C.,Luo,C.C.and Mastro,T.D.HIV type 1 subtypes in Guangxi Province,China,1996.AIDS Res Hum Retroviruses[J],1999,15(1):81-4.
    5.Chen,Z.,Huang,Y.,Zhao,X.,Skulsky,E.,Lin,D.,Ip,J.,Gettie,A.and Ho,D.D.Enhanced infectivity of an R5-tropic simian/human immunodeficiency Virus carrying human immunodeficiency virus type 1 subtype C envelope after Serial passages in pig-tailed macaques(Macaca nemestrina)[J].J Virol,2000,74(14):6501-10.
    6.Luo,C.C.,Tian,C.,Hu,D.J.,Kai,M.,Dondero,T.and Zheng,X.HIV-1 subtype C in China[J].Lancet,1995,345(8956):1051-2.
    7.Piyasirisilp,S.,McCutchan,F.E.,Carr,J.K.,Sanders-Buell,E.,Liu,W.,Chen,J.,Wagner,R.,Wolf,H.,Shao,Y,Lai,S.,Beyrer,C.and Yu,X.F.A recent outbreak of human immunodeficiency virus type 1 infection in southern China was initiated by two highly homogeneous,geographically separated strains,circulating recombinant form AE and a novel BC recombinant[J].J Virol,2000,74(23):11286-95.
    8.Rodenburg,C.M.,Li,Y.,'Crack,S.A.,Chen,Y,Decker,1.,Robertson,D.L.,Kalish,M.L.,Shaw,G.M.,Allen,S.,Hahn,B.H.and Gao,F.Near full-length clones and reference sequences for subtype C isolates of HIV type 1 from three different continents[J].AIDS Res Hum Retroviruses,2001,17(2):161-8.
    9.Su,L.,Graf,M.,Zhang,Y,von Briesen,H.,Xing,H.,Kostler,J.,Melzl,H.,Wolf,H.,Shao,Y and Wagner,R.Characterization of a virtually full-length human immunodeficiency virus type 1 genome of a prevalent intersubtype(C/B') recombinant strain in China[J].J Virol,2000,74(23):11367-76.
    10.Yu,X.F.,Chen,J.,Shao,Y.,Beyrer,C.,Liu,B.,Wang,Z.,LiU,W,Yang,J.,Liang,S.,Viscidi,R.P.,Gu,J.,Gurri-Glass,G.and Lai,S.Emerging HIV infections with distinct subtypes of HIV-1 infection among injection drug users from geographically separate locations in Guangxi Province,China[J].J Acquir Immune Defic Syndr,1999,22(2): 180-8.
    11.Yu,X.F.,Liu,W.,Chen,J.,Kong,W.,Liu,B.,Yang,J.,Liang,F,McCutchan,F.,Piyasirisilp,S.and Lai,S.Rapid dissemination of a novel B/C recombinant HIV-1 among injection drug users in southern China[J].Aids,2001,15(4):523-5.
    12.Beach,M.V."Blood heads" and AIDS haunt China's countryside.Lancet,2001,357(9249):49.
    13.Kaufman,J.and Jing,J.China and AIDS-the time to act is now[J].Science,2002,296(5577):2339-40.
    14.Shan,H.,Wang,J.X.,Ren,F R.,Zhang,Y Z.,Zhao,H.Y,Gao,G.J.,Ji,Y and Ness,P.M.Blood banking in China[J].Lancet,2002,360(9347):1770-5.
    15.Wu,Z.,Liu,Z.and Detels,R.HIV-1 infection in commercial plasma donors in China[J].Lancet,1995,346(8966):61-2.
    16.Linlin Bao,Nicole Vidal,Wei Deng,et al.Molecular Tracing of Sexual HIV Type 1Transmission in the Southwest Border of China[J].AIDS research and human retroviruses,2008,24(5):733-742.
    17.Kuiken C,F.B.,Hahn B,Marx P,McCutchan F,Mellors J,et al.(2001) HIV sequence compendium.Los Alamos,New Mexico 87545,USA:Theoretical Biology and Biophysics,Group T 10,Mail Stop K710,Los Alamos National Laboratory.
    18.Thompson,J.D.,Gibson,T.J.,Plewniak,F,Jeanmougin,F and Higgins,D.G.The CLUSTAL_X windows interface:flexible strategies for multiple sequence alignment aided by quality analysis tools[J].Nucleic Acids Res(1997) 25(24):4876-82.
    19.Lole,K.S.,Bollinger,R.C.,Paranjape,R.S.,Gadkari,D.,Kulkarni,S.S.,Novak,N.G,Ingersoli,R.,Sheppard,H.W.and Ray,S.C.Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India,with evidence of intersubtype recombination[J].J Virol,1999,73(1):152-160.
    20.倪明健,刘玉辉,陈晶,等.新疆喀什地区2004年艾滋病综合调查分析[J].中国艾滋病性病,2005,11(5):353-356.
    21.曾雪霞,何启亚,符鹏,等.海南省吸毒人群HIV感染状况调查[J].中国艾滋病性病,2007,13(1):23-25.
    22.韦茂国,李建国,徐大修,等.海南省2003年在服务小姐和吸毒者中开展流行病学调查情况分析[J].海南医学,2004,15(11):106-107.
    23.胡波,林经盛,冯元贵,等.娱乐场所推广使用安全套预防性病的效果分析[J].中国热带医学,2004,4(4):658-659.
    24.何启亚,邝继深,潘文利,等.海南省不同人群与艾滋病有关的行为调查[J].中国性病艾滋病防治,2002,8(5):274-277.
    25.曾毅,王必瑺,郑锡文,苏崇鳌,等.艾滋病的血清流行病学调查研究[J].中华流行病学杂志,1988,9:138-140.
    26.李大勤,郑锡文,张桂云,田春桥,等.中国云南省瑞丽等地艾滋病毒I型C亚型的分布研究[J].中华流行病学杂志,1996,17:337-339.
    27.马瑛,李祖正,张开祥,杨文乔,等.首次在我国吸毒人群中发现艾滋病病毒感染者[J].中华流行病学杂志,1990,11:184-185.
    28.邵一鸣,赵全壁,曾毅,张家鹏,张勇,段一娟,杨贵林.(1996)1995年云南瑞丽HIV-1毒株的基因变异和分析.病毒学报.12:9-17.
    29.邵一鸣,赵全壁,王斌,陈筝,苏玲,曾毅,赵尚德,张家鹏,段一娟.我国云南德宏地区HIV感染者HIV毒株膜蛋白基因的序列测定和分析[J].病毒学报,1994,10,291-299.
    30.滕智平,朱托夫,段一娟,张家鹏,曾毅.我国云南瑞丽市区HIV感染者HIV分子流行病学分析[J].中国性病艾滋病防治,1995,1:1-5.
    31.Yang,R.,Xia,X.,Kusagawa,S.,Zhang,C.,Ben,K.and Takebe,Y.On-going generation of multiple forms of HIV-1 intersubtype recombinants in the Yunnan Province of China [J].Aids,2002,16(10):1401-7.
    32.Kato,K.,Kusagawa,S.,Motomura,K.,Yang,R.,Shiino,T.,Nohtomi,K.,Sato,H.,Shibamura,K.,Nguyen,TH.,Pham,K.C.,Pham,H.T.,Duong,C.T,Nguyen,T.H.,Bui,D.T..Hoang,T.L.,Nagai,Y.and Takebe,Y.Closely related HIV-1 CRFO1_ AE variant among injecting drug users in northern Vietnam:evidence of HIV spread across the Vietnam-China border[J].AIDS Res Hum Retroviruses,2001,17(2):113-123.
    33.Zhong,P,Kang,L.,Pan,Q.,Konings,F,Burda,S.,Ma,L.,Xue,Y,Zheng,X.,Jin,Z.and Nyambi,P.Identification and distribution of HIV type 1 genetic diversity and protease inhibitor resistance-associated mutations in Shanghai,P.R.China[J].J Acquir Immune Defic Syndr,2003,34(1):91-101.
    34.严延生,翁育伟,陈舸,邵一鸣,王惠榕,潘品良,陈亮,吴守丽,郑兆双,郑健.福建省艾滋病感染的流行病学和病毒亚型之间相互关系的研究[J].中华流行病学杂志,2001,22:428-431.
    35.严延生,郑兆双,邵一鸣,陈舸,颜苹苹,苏玲,郑健.福建省艾滋病流行特征及流行趋势分析[J].中华流行病学杂志,1999,20:23-26.
    36.Robertson DL,Sharp PM,McCutchan FE,et al.Recombination in HIV-1[J].Nature,1995,374:124-126.
    37.Carr JK,Salminen MO,Koch C,et al.Full-length sequence and mosaic structure of a human immunodeficiency virus type 1 isolate from Thailand[J].J Virol,1996,70:5935-5943.
    38.Gao F.,Robertson D.L.,Morrison S.G.,et al.The heterosexual human immunodeficiency virus type 1 epidemic in Thailand is caused by an intersubtype(A/E)recombinant of African origin[J].J Virol,1996,70:7013-7029.
    39.张喜红,袁均林,詹发先,等.HIV-1基因分型及其研究意义[J].中国艾滋病性病,2005,11(1):76-77.
    40.汪宁.艾滋病在中国和全球的流行现状及面临的挑战[J].科技导报,2005,23(7):4-8.
    41.Hue S.,Clewley J.P.,Cane P.A.,and Pillay D.HIV-1 pol gene variation is sufficient for reconstructi6n of transmissions in the era of antiretroviral therapy[J].AIDS,2004,18:719-728.
    42.Pao D.,Fisher M.,Hue S.,Dean G.,Murphy G.,Cane P.A.,Sabin C.A.,and Pillay D.Transmission of HIV-1 during primary infection:Relationship to sexual risk and sexually transmitted infections[J].AIDS,2005,19:85-90.
    43.Hue S.,Pillay D.,Clewley J.P.,and Pybus O.G.Genetic analysis reveals the complex structure of HIV-1 transmission within defined risk groups[J].Proc Natl Acad Sci,2005,102:4425-4429.
    44.Brenner B.G.,Roger M.,Routy J,P.,Moisi D.,Ntemgwa M.,Matte C.,Baril J.G.,Thomas R.,Rouleau D.,Bruneau J.,Leblanc R.,Legault M.,Tremblay C.,Charest H.,Wainberg M.A.,and the Quebec Primary HIV Infection Study Group.High rates of forward transmission events after acute/early HIV-1 infection[J].J Infect Dis,2007,195:951-959.
    45.Autran,B.,Carcelain,G.,Li,T.S.,Blanc,C.,Mathez,D.,Tubiana,R.,Katlama,C.,Debre,P.and Leibowitch,J.Positive effects of combined antiretroviral Therapy on CD4+ T cell homeostasis and function in advanced HIV disease[J].Science,1997,277(5322):112-116.
    46.Collier,A.C.,Coombs,R.W.,Schoenfeld,D.A.,Bassett,R.L.,Timpone,J.,Baruch,A.,Jones,M,Facey,K.,Whitacre,C.,McAuliffe,V.J.Friedman,H.M.,Merigan,T.C.,Reichman,R.C.,Hooper,C.and Corey,L.Treatment of human immunodeficiency virus infection with saquinavir,zidovudine and zalcitabine.AIDS Clinical Trials Group[J].N Engl J Med,1996,344(16):1011-1017.
    47.Kilby,J.M.and Eron,J.J.Novel therapies based on mechanisms of H1V-1 cell entry[J].N Engl J Med,2003,348(22):2228-38.
    48.Becker-Pergola,G.,Kataaha,P.,Johnston-Dow,L.,Fung,S.,Jackson,J.B.and Eshleman,S.H.Analysis of HIV type 1 protease and reverse Transcriptase in antiretroviral drug-naive Ugandan adults[J].AIDS Res Hum Retroviruses,2000,16(8):807-13.
    49.Delgado,E.,Leon-Ponte,M.,Villahemiosa,M.L.,Cuevas,M.T.,Deibis,L.,Echeverria,G,Thomson,M.M.,Perez-Alvarez,L.,Osmanov,S.and Najera,R.Analysis of EIIV type 1 protease and reverse transcriptase sequences from Venezuela for drug resistance-associated mutations and subtype classification:a UNAIDS study[J].AIDS Res Hum Retroviruses,2001,17(8):753-8.
    50.Handema,R.,Terunuma,H.,Kasolo,F,Kasai,H.,Sichone,M.,Yamashita,A.,Deng,X.,Mulundu,G,Ichiyama,K.,Munkanta,M.,Yokota,T.,Wakasugi,N.,Tezuka,F,Yamamoto,N.and Ito,M.Prevalence of drug-resistance-associated mutations in antiretroviral drug-naive Zambians infected with subtype C HIV-1[J].AIDS Res Hum Retroviruses,2003,19(2):151-160.
    51.Stephane Hue,Jonathan P.Clewley,Patricia A.Cane,et al.,HIV-1 pol gene variation is sufficient for reconstruction of transmissions in the era of antiretroviral therapy[J].AIDS,2004,Mar 26;18(5):719-28.
    52.Shafer,R.W.,Kantor,R,and Gonzales,M.J.The genetic basis of HIV-1 resistance to reverse transcriptase and protease inhibitors[J].AIDS Rev,2000,2:211-228.
    53.Pieniazek,D.,Rayfield,M.,Hu,D.J.,Nkengasong,J.,Wiktor,S.Z.,Downing,R.,Biryahwaho,B.,Mastro,T.,Tanuri,A.,Soriano,V,Lai,R.and Dondero,T.Protease sequences from HIV-1 group M subtypes A-H reveal distinct amino acid mutation patterns associated with protease resistance in protease inhibitor-naive individuals worldwide.HIV Variant Working Group[J].Aids,2000,14(11):1489-95.
    54.Comelissen,M.,van den Burg,R.,Zorgdrager,F.,Lukashov,V and Goudsmit,J.Pol gene diversity of five human immunodeficiency virus type 1 subtypes:evidence for naturally occurring mutations that contribute to drug resistance,limited recombination patterns,and common ancestry for subtypes B and D[J].J Virol,1997,71(9):6348-58.
    55.Alaeus,A.,Lidman,K.,Bjorkman,A.,Giesecke,J.and Albert,J.Similar rateOf disease progression among individuals infected with HIV-1 genetic subtypesA-D[J].Aids,1999,13(8):901-7.
    56.Apetrei,C.,Descaps,D.,Collin,G,Loussert-Ajaka,I.,Damond,F.,Duca,M.,Simon,F.and Brun-Vezinet,F.Human immunodeficiency virus type 1 Subtype F reverse transcriptase sequence and drug susceptibility[J].J Virol,1998,72(5):3534-8.
    57.Grossman,Z.,Vardinon,N.,Chemtob,D.,Alkan,M.L.,Bntwich,Z.,Burke,M.,Gottesman,G,Istomin,V,Levi,1.,Maayan,S.,Shahar,E.and Schapiro,J.M.Genotypic variation of HIV-1 reverse transcriptase and protease:comparative analysis of Glade C and Glade B[J].Aids,2001,5(12):1453-60.
    58.Landman,R.,Schiemann,R.,Thiam,S.,Vray,M.,Canestri,A.,Mboup,S.,Kane,C.T., Delaporte,E.,Sow,P S.,Faye,M.A.,Gueye,M.,Peytavin,G,Dalban,C,Girard,P.M.and Ndoye,I.Once-a-day highly active antiretroviral therapy in treatment-naive HIV-1-infected adults in Senegal[J].Aids,2003,17(7):1017-22.
    59.Shafer,R.W.,Chuang,T.K.,Hsu,P,White,C.B.and Katzenstein,D.A.Sequence and drug susceptibility of subtype C protease from human immunodeficiency virus type 1 seroconverters in Zimbabwe[J].AIDS Res Hum Retroviruses,1999,15(1):65-9.
    60.Shafer,R.W.,Eisen,J.A.,Merigan,TC.and Katzenstein,D.A.Sequence and drug susceptibility of subtype C reverse transcriptase from human immunodeficiency virus type 1 seroconverters in Zimbabwe[J].J Virol,1997,71(7):5441-8.
    61.Toni,T.,Masquelier,B.,Bonard,D.,Faure,M.,Huet,C,Caumont,A.,Roques,P,Dabis,F,Salamon,R.and Fleury,H.Primary HIV-1 drug resistance in Abidjan (Cote d'lvoire):a genotypic and phenotypic study[J].Aids,2002,16(3):488-91.
    62.Kantor,R.,Machekano,R.,Gonzales,M.J.,Dupnik,K.,Schapiro,J.M.and Shafer,R.W.Human Immunodeficiency Virus Reverse Transcriptase and Protease Sequence Database:an expanded data model integrating natural language text and sequence analysis programs[J].Nucleic Acids Res,2001,29(1):296-9.
    63.Hirsch,M.S.,Brun-Vezinet,F,D'Aquila,R.T.,Hammer,S.M.,Johnson,VA.,Kuritzkes,D.R.,Loveday,C,Mellors,J.W.,Clotet,B.,Conway,B.,Demeter,L.M.,Vella,S.,Jacobsen,D.M.and Richman,D.D.Antiretroviral drug resistance testing in adult HIV-1 infection:recommendations of an International AIDS Society-USA Panel[J].Jama,2000,283(18):2417-26.
    64.Hirsch,M.S.,Conway,B.,D'Aquila,R.T.,Johnson,VA.,Brun-Vezinet,F,Clotet,B.,Demeter,L.M.,Hammer,S.M.,Jacobsen,D.M.,Kuritzkes,D.R.,Loveday,C,Mellors,J.W.,Vella,5.and Richman,D.D.Antiretroviral drug resistance testing in adults with HIV infection:implications for clinical management.International AIDS Society-USA Panel.Jama,1998,279(24):1984-1991.
    65.Tristem,M.,Marshall,C,Karpas,A.and Hill,F.Evolution of the primate lentiviruses:evidence from vpx and vpr[J].Embo J,1992,11(9):3405-12.
    66.Adjorlolo-Johnson,G,De Cock,K.M.,Ekpini,E.,Vetter,K.M.,Sibailly,T.,Brattegaard,K.,Yavo,D.,Doorly,R.,Whitaker,J.P.,Kestens,L.and et al.Prospective comparison of mother-to-child transmission of HIV-1 and HIV-2 in Abidjan,Ivory Coast[J].Jama,1994,272(6):462-6.
    67.Cavaco-Silva,P.,Taveira,N.C.,Rosado,L.,Lorenco,M.H.,Moniz-Pereira,J.,Douglas, N.W.,Daniels,R.S.and Santos-Ferreira,M.O.Virological and molecular demonstration of human immunodeficiency virus type 2 vertical transmission[J].J Virol,1998,72(4):3418-22.
    68.Marlink,R.,Kanki,R,Thior,L,Travers,K.,Eisen,G,Siby,T.,Traore,L,Hsieh,C.C.,Dia,M.C.,Gueye,E.H.and et al.Reduced rate of disease development after HIV-2 infection as compared to HIV I[J].Science,1994,265(5178):1587-90.
    69.O'Donovan,D.,Ariyoshi,K.,Milligan,P.,Ota,M.,Yamuah,L.,Sarge-Niie,R.and Whittle,H.Maternal plasma viral RNA levels determine marked differences in mother-to-child transmission rates of HIV-1 and HIV-2 in The Gambia.MRC/Gambia Government/University College London Medical School working group on mother-child transmission of HIV[J].Aids,2000,14(4):441-8.
    70.Whittle,H.,Morris,J.,Todd,J.,Corrah,T,Sabally,S.,Bangali,J.,Ngom,P.T,Rolfe,M.and Wilkins,A.HIV-2-infected patients survive longer than HIV-1-infected patients[J].Aids,1994,8(11):1617-20.
    71.Freed,E.O.,Englund,G.and Martin,M.A.Role of the basic domain of human immunodeficiency virus type 1 matrix in macrophage infection[J].J Virol,1995,69(6):3949-54.
    72.Mammano,F,Kondo,E.,Sodroski,J.,Bukovsky,A.and Gottlinger,H.G.Rescue of human immunodeficiency virus type 1 matrix protein mutants by envelope glycoproteins with short cytoplasmic domains[J].J Virol,1995,69(6):3824-30.
    73.Gamble,T.R.,Yoo,S.,Vajdos,F.F,von Schwedler,U.K.,Worthylake,D.K.,Wang,H.,McCutcheon,J.P,Sundquist,W.I.and Hill,C.P.Structure of the carboxyl-terminal dimerization domain of the HIV-1 capsid protein[J].Science,1997,278(5339):849-53.
    74.Srinivasakumar,N.,Hammarskjold,M.L.and Rekosh,D.Characterization of deletion mutations in the capsid region of human immunodeficiency virus type 1 that affect particle formation and Gag-Pol precursor incorporation[J].J Virol,1995,69(10):6106-14.
    75.Cameron,C.E.,Ghosh,M.,Le Grice,S.F.and Benkovic,S.J.Mutations in HIV reverse transcriptase which alter RNase H activity and decrease strand transfer efficiency are suppressed by HIV nucleocapsid protein[J].Prog Natl Acad Sci,1997,94(13):6700-5.
    76.Guo,J.,Henderson,L.E.,Bess,J.,Kane,B.and Levin,J.G.Human immunodeficiency virus type 1 nucleocapsid protein promotes efficient strand transfer and specific viral DNA synthesis by inhibiting TAR-dependent self-priming from minus-strand strong-stop DNA[J].J Virol,1997,71(7):S 178-88.
    77.Zhu,H.,Jian,H.and Zhao,L.J.Identification of the 15FRFG domain in HIV-1 Gag p6 essential for Vpr packaging into the virion[J].Retroviralogy,2004,1(1):26.
    78.Huang,M.,Orenstein,J.M.,Martin,M.A.and Freed,E.O.P6 Gag is required for particle production from full-length human immunodeficiency virus type 1 molecular clones expressing protease[J].J Virol,1995,69(11):6810-8.
    79.Erickson,J.W.,Gurnik,S.V and Markowitz,M.Protease inhibitors:resistance,cross-resistance,fitness and the choice of initial and salvage therapies[J].Aids,1999,13 SupplA:S189-204.
    80.Miller,V.International perspectives on antiretroviral resistance.Resistance to protease inhibitors[J].J Acquir Immune Defic Syndr,2001,26 Suppl 1:S34-50.
    81.Huang,H.,Chopra,R.,Verdine,G.L.and Harrison,S.C.Structure of a covalently trapped catalytic complex of HIV-1 reverse transcriptase:implications for drug resistance[J].Science,1998,282(5394):1669-75.
    82.Kohlstaedt,L.A.,Wang,J.,Friedman,J.M.,Rice,P.A.and Steitz,TA.Crystal structure at 3.5 A resolution of HIV-1 reverse transcriptase complexed with an inhibitor[J].Science,1992,256(5065):1783-90.
    83.Oude Essink,B.B.,Das,A.T.and Berkhout,B.HIV-1 reverse transcriptase discriminates against non-self tRNA primers[J].J Mol Biol,1996,264(2):243-54.
    84.Rice,P,Craigie,R.and Davies,D.R.Retroviral integrases and their cousins[J].Curr Opin Struct Biol,1996,6(1):76-83.
    85.Miller,M.D.,Wang,B.and Bushman,F D.Human immunodeficiency virus type 1 preintegration complexes containing discontinuous plus strands are competent to integrate in vitro[J].J Virol,1995,69(6):3938-44.
    86.Johnson,A.A.,Marchand,C.and Pommier,Y.HIV-1 integrase inhibitors:a decade of research and two drugs in clinical trial[J].Curr Top Med Chem,2004,4(10):1059-77.
    87.Clapham,P.R.and Weiss,R.A.Immunodeficiency viruses.Spoilt for choice of co-receptors[J].Nature,1997,388(6639):230-1.
    88.Zhang,L.,He,T.,Huang,Y,Chen,Z.,Guo,Y,Wu,S.,Kunstman,K.J.,Brown,R.C.,Phair,J.P,Neumann,A.U.,Ho,D.D.and Wolinsky,S.M.Chemokine coreceptor usage by diverse primary isolates of human immunodeficiency virus type 1[J].J Virol,1998,72(11):9307-12.
    89.Shaheen,F.and Collman,R.G.Co-receptor antagonists as HIV-1 entry inhibitors[J].Curr Opin Infect Dis,2004,17(1):7-16.
    90.Chan,D.C.,Fass,D.,Berger,J.M.and Kim,P.S.Core structure of gp41 from the HIV envelope glycoprotein[J].Cell,1997,89(2):263-73.
    91.Jiang,S.,Zhao,Q.and Debnath,A.K.Peptide and non-peptide HIV fusion inhibitors[J]. Curr Pharm Des,2002,8(8):563-80.
    92.Weissenhorn,W.,Dessen,A.,Harrison,S.C.,Skehel,JJ.and Wiley,D.C.Atom structure of the ectodomain from HIV-1 gp41[J].Nature,1997,387(6631):426-30.
    93.Wild,C.T.,Shugars,D.C,Greenwell,T.K.,McDanal,C.B.and Matthews,T.J.Peptides corresponding to a predictive alpha-helical domain of human immunodeficiency virus type 1 gp41 are potent inhibitors of virus infection[J].Proc Natl Aead Sci,1994,91(21):9770-4.
    94.Kilby,J.M.,Hopkins,S.,Venetta,T.M.,DiMassimo,B.,Cloud,G.A.,Lee,J.Y,Alldredge,L.,Hunter,E.,Lambert,D.,Bolognesi,D.,Matthews,T.,Johnson,M.R.,Nowak,M.A.,Shaw,G.M.and Saag,M.S.Potent suppression of HIV-1 replication in humans by T 20,a peptide inhibitor of gp41-mediated virus entry[J].Nat Med,1998,4(11):1302-7.
    95.Jones,K.A.and Peterlin,B.M.Control of RNA initiation and elongation at the HIV-1 promoter[J].Annu Rev Biochem,1994,63:717-43.
    96.Cujec,T.R,Cho,H.,Maldonado,E.,Meyer,J.,Reinberg,D.and Peterlin,B.M.The human immunodeficiency virus transactivator Tat interacts with the RNA Polymerase II holoenzyme[JJ.Mol Cell Biol,1997,17(4):1817-23.
    97.Jones,K.A.Taking a new TAK on tat transactivation[J].Genes Dev,1997,11(20):2593-9.
    98.Parada,C.A.and Roeder,R.G Enhanced processivity of RNA polymerise II triggered by Tat-induced phosphorylation of its carboxy-terminal domain[J].Nature,1996,384(6607):375-8.
    99.Yang,G,Song,Q.,Charles,M.,Drosopoulos,W.C,Arnold,E.and Prasad,V R.Use of chimeric human immunodeficiency virus types 1 and 2 reverse transcriptases for structure-function analysis and for mapping susceptibility to nonnucleoside inhibitors[J].J Acquir Immune Defic Syndr Hum Retrovirol,1996,11(4):326-33.
    100.Zhou,Q.and Sharp,PA.Tat-SFl:cofactor for stimulation of transcriptional elongation by HIV-1 Tat[J].Science,1996,274(5287):605-10.
    101.Malim,M.H.,Hauber,J.,Le,S.Y,Maizel,J.V and Cullen,B.R.The HIV-1 rev traps-activator acts through a structured target sequence to activate nuclear export of unspliced viral mRNA[J].Nature,1989,338(6212):254-7.
    102.Truant,R.and Cullen,B.R.The arginine-rich domains present in human immunodeficiency virus type 1 Tat and Rev function as direct importin beta-dependent nuclear localization signals[J].Mol Cell Biol,1999,19(2):1210-7.
    103.Iwai,S.,Pritchard,C,Mann,D.A.,Karn,J.and Gait,M.J.Recognition of the high affinity binding site in rev-response element RNA by the human immunodeficiency virus type-1 rev protein[J].Nucleic Acids Res,1992,20(24):646-72.
    104.Malim,M.H.,Tiley,L.S.,McCara,D.R,Rusche,J.R.,Hauber,J.and Cullen,B.R.HIV-1 structural gene expression requires binding of the Revtrans-activator to its RNA target sequence[J].Cell,1990,60(4):675-83.
    105.Meyer,B.E.,Meinkoth,J.L.and Malim,M.H.Nuclear transport of human immunodeficiency virus type 1,visna virus,and equine infectious anemia virus Rev proteins:identification of a family of transferable nuclear export signals[J]..J Virol,1996,70(4):2350-9.
    106.Wen,W.,Meinkoth,J.L.,Tsien,R.Y and Taylor,S.S.Identification of a signal for rapid export of proteins from the nucleus[J].Cell,1995,82(3):463-73.
    107.Cohen,E.A.,Subbramanian,R.A.and Gottlinger,H.G.Role of auxiliary proteins in retroviral morphogenesis[J].Curr Top Microbiol Immunol,1996,214:219-35.
    108.Lamb,R.A.and Pinto,L.H.Do Vpu and Vpr of human immunodeficiency virus type 1 and NB of influenza B virus have ion channel activities in the viral life cycles[J]?Virology,1997,229(1):1-11.
    109.Kerkau,T,Bacik,L,Bennink,J.R.,Yewdell,J.W.,Hunig,T.,Schimpl,A.and Schubert,U.The human immunodeficiency virus type 1 (HIV-1) Vpu protein interferes with an early step in the biosynthesis of major histocompatibility complex (MHC) class I molecules[J].J Exp Med,1997,185(7):1295-305.
    110.Arora,V,K.,Fredericksen,B.L.and Garcia,J.V.Nef:agent of cell subversion[J].Microbes Infect,2002,4(2):189-99.
    111.Harris,R.S.,Bishop,K.N.,Sheehy,A.M.,Craig,H.M.,Petersen-Mahrt,S.K.,Watt,LN.,Neuberger,M.S.and Malim,M.H.DNA deamination mediates innate immunity to retroviral infection[J].Cell,2003,113(6):803-9.
    112.Madani,N.and Kabat,D.An endogenous inhibitor of human immunodeficiency virus in human lymphocytes is overcome by the viral Vif protein[J].J Virol,1998,72(12):10251-5.
    113.Mangeat,B.,Turelli,P,Caron,C.G,Friedli,M.,Perrin,L.and Trono,D.Broad antiretroviral defence by human APOBEC3G through lethal editing of nascent reverse transcripts[J].Nature,2003,424(6944):99-103.
    114.Mann,M,Rose,K.M.,Kozak,S.L.and Kabat,D.HIV-1 Vif protein binds the editing enzyme APOBEC3G and induces its degradation[J].Nat Med,2003,9(11):1398-403.
    115.Sheehy,A.M.,Gaddis,N.C.,Choi,J.D.and Malim,M.H.Isolation of a human gene that inhibits HIV-1 infection and is suppressed by the vital Vif protein[J].Nature,2002,418(6898):646-50.
    116.Sheehy,A.M.,Gaddis,N.C.and Malim,M.H.The antiretroviral enzyme APOBEC3G is degraded by the proteasome in response to HIV-1 Vif[J].Nat Med,2003,9(11):1404-7.
    117.Simon,J.H.,Gaddis,N.C,Fouchier,R..A.and Malim,M.H.Evidence for a newly discovered cellular anti-HIV-1 phenotype[J].Nat Med,1998,4(12):1397-400.
    118.Zhang,H.,Yang,B.,Pomerantz,R.J.,Zhang,C,Arunachalam,S.C.and Gao,L.The cytidine deaminase CEM15 induces hypermutation in newly synthesized HIV-1 DNA[J].Nature,2003,424(6944):94-8.
    119.Le Rouzic,E.and Benichou,S.The Vpr protein from HIV-1:distinct roles along the viral life cycle[J].Retroviroiogy,2005,2(1):11.
    120.Li,W.H.,Tanimura,M.and Sharp,P M.Rates and dates of divergence between AIDS virus nucleotide sequences[J].Mol Biol Evol,1988,5(4):313-30.
    121.Louwagie,J.,McCutchan,F.E.,Peelers,M.,Brennan,T.P.,Sanders-Buell,E.,Eddy,G.A.,van der Groen,G,Fransen,K.,Gershy-Damet,G.M.,Deleys,R.and et al.Phylogenetic analysis of gag genes from 70 international HIV-1 isolates provides evidence for multiple genotypes[J].Aids,1993,7(6):769-80.
    122.Janssens,W.,Heyndrickx,L.,Fransen,K.,Motte,J.,Peelers,M.,Nkengasong,J.N.,Ndumbe,P M.,Delaporte,E.,Perret,J.L.,Atende,C.and et al.Genetic and phylogenetic analysis of env subtypes G and H in central Africa[J].AIDS Res Hum Retroviruses,1994,10(7):877-9.
    123.Kostrikis,L.G.,Bagdades,E.,Cao,Y,Zhang,L.,Dimitriou,D.and Ho,D.D.Genetic analysis of human immunodeficiency virus type 1 strains from patients in Cyprus:identification of a new subtype designated subtype I[J].J Virol,1995,69(10):6122-30.
    124.Leitner,T.,Alaeus,A.,Marquina,S.,Lilja,E.,Lidman,K.and Albert,J.Yet another subtype of-HIV type 1[J]?AIDS Res Hum Retroviruses,1995,11(8):995-7.
    125.Louwagie,J.,Janssens,W.,Mascola,J.,Heyndrickx,L.,Hegerich,P.,van der Groen G,McCutchan,F.E.and Burke,D.S.Genetic diversity of the envelope glycoprotein from human immunodeficiency virus type 1 isolates of African origin[J].J Virol,1995,69(1):263-71.
    126.Triques,K.,Bourgeois,A.,Saragosti,S.,Vidal,N.,Mpoudi-Ngole,E.,Nzilambi,N.,Apetrei,C,Ekwalanga,M.,Delaporte,E.and Peelers,M.High diversity of HIV-1 subtype F strains in Central Africa[J].Virology,1999,259(1):99-109.
    127.Triques,K.,Bourgeois,A.,Vidal,N.,Mpoudi-Ngole,E.,Mulanga-Kabeya,C, Nzilambi,N.,Torimiro,N.,Saman,E.,Delaporte,E.and Peelers,M.Near-full-length genome sequencing of divergent African HIV type 1 subtype F viruses leads to the identification of a new HIV type 1 subtype designated K[J].AIDS Res Hum Retroviruses,2000,16(2):139-51.
    128.Gurtler,L.G.,Hauser,PH.,Eberle,J.,von Brunn,A.,Knapp,S.,Zekeng,L.,Tsague,J.M.and Kaptue,L.A new subtype of human immunodeficiency virus type 1 (MVP-5180) from Cameroon[J].J Virol,1994,68(3):1581-5.
    129.Simon,F,Mauclere,P,Roques,P.,Loussert-Ajaka,L,Mullet-Trutwin,M.C.,Saragosti,S.,Georges-Courbot,M.C.,Barre-Sinoussi,F and Brun-Vezinet,F.Identification of a new human immunodeficiency virus type 1 distinct from group M and group O[J].Nat Med,1998,4(9):1032-7.
    130.Robertson,D.L.,Sharp,P M.,McCutchan FE.and Hahn,B.H.Recombination in HIV-1[J].Nature,1995,374(6518);124-6.
    131.McCutchan,FE.,Hegerich,PA.,Brennan,T.P.,Phanuphak,P,Singharaj,P.,Jugsudee,A.,Berman,P W.,Gray,A.M.,Fowler,A.K.and Burke,D.S.Genetic variants of HIV-1 in Thailand[J].AIDS Res Hum Retroviruses,1992,8(11):1887-95.
    132.Carr,J.K.,Salminen,M.O.,Koch,C.,Gotte,D.,Artenstein,A.W.,Hegerich,P.A.,St Louis,D.Burke,D.S.and McCutchan,F.E.Full-length sequence and mosaic structure of a human immunodeficiency virus type 1 isolate from Thailand[J].J Virol,1996,70(9):5935-43.
    133.Gao,R,Robertson,D.L.,Morrison,S.G.,Hui,H.,Craig,S.,Decker,J.,Fultz,P.N.,Girard,M.,Shaw,G.M.,Hahn,B.H.and Sharp,P.M.The heterosexual human immunodeficiency virus type 1 epidemic in Thailand is caused by an intersubtype (A/E) recombinant of African origin[J].J Virol,1996,70(10):7013-29.
    134.McCutchan,F.E.,Carr,J.K.,Bajani,M.,Sanders-Buell,E.,Harry,TO.,Stoeckli,T.C.,Robbins K.E.,Gashau,W.,Nasidi,A.,Janssens,W.and Kalish,M.L.Subtype G and multiple forms of A/G intersubtype recombinant human immunodeficiency virus type 1 in Nigeria[J].Virology,1999,254(2):226-34.
    135.Montavon,C,Bibollet-Ruche,F,Robertson,D.,Koumare,B.,Mulanga,C,Esu-Williams,E.,Toure,C,Mboup,S.,Saman,E.,Delaporte,E.and Peeters,M.The identification of a complex A/G/I/J recombinant HIV type 1 virus in various West African countries[J].AIDS Res Hum Retroviruses,1999,15(18):1707-12.
    136.Nasioulas,G,Paraskevis,D.,Magiorkinis,E.,Theodoridou,M.and Hatzakis,A.Molecular analysis of the full-length genome of HIV type 1 subtype I:evidence of A/G/I recombination[JJ.AIDS Res Hum Retroviruses,1999,15(8):745-58.
    137.Carr,J.K.,B.T.Foley,T.Leitner,M.Salminen,B.Korber,and F.McCutchan.Reference sequences representing the principle genetic diversity of HIV-1 in the Pandemic.Human retroviruses and AIDS:a compilation and analysis of nucleic acid and amino acid sequences.1998:
    138.Cuevas,M.T.,Ruibal,I.,Villahermosa,M.L.,Diaz,H.,Delgado,E.,Parga,E.V.,Perez-Alvarez,L.,de Armas,M.B.,Cuevas,L.,Medrano,L.,Noa,E.,Osmanov,S.,Najera,R.and Thomson,M.M.High HIV-1 genetic diversity in Cuba[J].Aids,2002,16(12):1643-53.
    139.Osmanov,S.,Pattou,C,Walker,N.,Schwardlander,B.and Esparza,J.Estimated global distribution and regional spread of HIV-1 genetic subtypes in the year 2000[J].J Acquir Immune Defic Syndr,2002,29(2):184-90.
    140.Hungnes,O.,Jonassen,T.O.,Jonassen,CM.and Grinde,B.Molecular epidemiology of viral infections.How sequence information helps us understand the evolution and dissemination of viruses[J].Aids,2000,108(2):81-97.
    141.Vidal,N.,Peeters,M.,Mulanga-Kabeya,C,Nzilambi,N.,Robertson,D.,Ilunga,W.,Sema,H.,Tshimanga,K.,Bongo,B.and Delaporte,E.Unprecedented degree of human immunodeficiency virus type 1 (HIV-1) group M genetic diversity in the Democratic Republic of Congo suggests that the HIV-1 pandemic originated in Central Africa[J].J Virol,2000,74(22):10498-507.
    142.DeGruttola,V,Dix,L.,D'Aquila,R.,Holder,D.,Phillips,A.,Ait-Khaled,M.,Baxter,J.,Clevenbergh,P.,Hammer,S.,Harrigan,R.,Katzenstein,D.,Lanier,R.,Miller,M.,Para,M.,Yerly,S.,Zolopa,A.,Murray,J.,Patick,A.,Miller,V,Castillo,S.,Pedneault,L.and Mellors,J.The relation between baseline HIV drug resistance and response to antiretroviral therapy:re-analysis of retrospective and prospective studies using a standardized data analysis plan[J].Antivir Ther,2000,5(1):41-8.
    143.Hanna,G.J.and D'Aquila,R.T.Clinical use of genotypic and phenotypic drug resistance testing to monitor antiretroviral chemotherapy[J].Clin Infect Dis,2001,32(5):774-82.
    144.Haubrich,R.and Demeter,L.International perspectives on antiretroviral resistance.Clinical utility of resistance testing:retrospective and prospective data supporting use and current recommendations[J].J Acquir Immune Defic Syndr,2001,26 Suppl 1:S51-9.
    145.Baxter,J.D.,Mayers,D.L.,Wentworth,D.N.,Neaton,J.D.,Hoover,M.L.,winters,M.A.,Mannheimer,S.B.,Thompson,M.A.,Abrams,D.I.,Brizz,B.J.,Ioannidis,J.P.and Merigan,T.C.A randomized study of antiretroviral managementBased on plasma genotypic antiretroviral resistance testing in patients failing Therapy.CPCRA 046 Study Team for the Terry Beirn Community Programs for Clinical Research on AIDS[J].Aids,2000,14(9):F83-93.
    146.Durant,J.,Clevenbergh,P,Halfon,P.,Delgiudice,P,Porsin,S.,Simonet,P.,Montagne,N.,Boucher,C.A.,Schapiro,J.M.and Dellamonica,P.Drug-resistance genotyping in HIV-1 therapy:the VIRADAPT randomised controlled trial[J].Lancet,1999,353(9171):2195-9.
    .147.EuroGuidelines Group for HIV Resistance.Clinical and laboratory guideline for the use of HIV-1 drug resistance testing as part of treatment management:recommendations for the European setting.The EuroGUidelines Group for HIV resistance[J].Aids,2001,15(3):309-20.
    148.Mansky,L.M.Retrovirus mutation rates and their role in genetic variation[J].J Gen Virol,1998,79 (Pt 6):1337-45.
    149.Coffin,J.M.HIV population dynamics in vivo:implications for genetic variation,pathogenesis,and therapy[J].Science,1995,267(5197):483-9.
    150.Phillips,A.N.,Miller,V,Sabin,C,Cozzi Lepri,A.,Klauke,S.,Bickel,M.,Doerr,H.W.,Hill,A.and Staszewski,S.Durability of HIV-1 viral suppression over 3.3 years with mufti-drug antiretroviral therapy in previously drug-naive individuals[J].Aids,2001,15(18):2379-84.
    151.Balotta,C.,Berlusconi,A.,Pan,A.,Violin,M.,Riva,C.,Colombo,M.C.,Gori,A.,Papagno,L.,Corvasce,S.,Mazzucchelli,R.,Facchi,G.,Velleca,R.,Saporetti,G.,Galli,M.,Rusconi,S.and Moroni,M.Prevalence of transmitted Nucleoside analogue-resistant HIV-1 strains and pre-existing mutations in pol reverse transcriptase and protease region:outcome after treatment in recentlyinfected individuals[J].Antivir Ther,2000,5(1):7-14.
    152.Bennett DE,Z.I.,Heneine W,Wood T,Garcia-Lerma JG,Smith AJ,McCormick L,Weinstock H.Prevalence of mutations associated with antiretroviral drug Resistance among men and women newly diagnosed with HIV in 10 US cities,1997-2001[J].Antiviral Therapy,2003,8:S133.
    153.Briones,C,Perez-Olmeda,M.,Rodriguez,C,del Romero,J.,Hertogs,K.and Soriano,V.Primary genotypic and phenotypic HIV-1 drug resistance in Recent seroconverters in Madrid[J].J Acquir Immune Defic Syndr,2001,26(2):145-50.
    154.Duwe,S.,Brunn,M.,Altmann,D.,Hamouda,O.,Schmidt,B.,Walter,H.,Pauli,G and Kucherer,C.Frequency of genotypic and phenotypic drug-resistant HIV-1 among therapy-naive patients,of the German Seroconverter Study[J].J Acquir Immune Defic Syndr,2001,26(3):266-73.
    155.Grant R,L.T,Sports G,Hecht F.Declining nucleoside reverse transcriptase inhibitor primary resistance in San Francisco,2000-2002JTJ.Antiviral Therapy,2003,8:S134.
    156.Little,S.J.,Daar,E.S.,D'Aquila,R.T.,Keiser,P.H.,Connick,E.,Whitcomb,J.M.,Hellmann,N.S.,Petropouios,C.J.,Sutton,L.,Pitt,J.A.,Rosenberg,E.S.,Koup,R.A.,Walker,B.D.and Richman,D.D.Reduced antiretroviral drug susceptibility among patients with primary HIV infection[JJ.Jama,1999,282(12):1142-9
    157.Tamales,C,Pasquier,C,Yahi,N.,Colson,P,Poizot-Martin,L,Lepeu,G,Gallais,H.,Massip,P,Puel,J.and Izopet,J.) Prevalence of drug resistant mutants and virological response to combination therapy in patients with primary HIV-1 infection[J].J Med Virol,2006,1(2):181-6.
    158.Wensing A,V D.,Asjo B,Balotta C,Camacho R,Mendoza Cd,Deroo S,Derdelinckx I,Grossman Z,Hamouda O,Hatzakis A,Hoepelman A,Horban A,Korn K,Kuecherer C,Nielsen C,Onmaasen V,Perrin L,Paraskevis D,Puchhammer E,Roman F,Salminen M,Schmit J,Soriano V,Stanczak G,Stanojevic M,Vandamme A-M,Laethem KV,Violin M,Yerly S,Zazzi M,Programme CBobotS.Prevalence of transmitted drug resistance in Europe is largely influenced by the presence of non-B sequences:analysis of 1400 patients from 16 countries:the CATCH-Study[J].Antiviral Therapy,2003,8:
    S131.
    159.Yerly,S.,Kaiser,L.,Race,E.,Bru,J.P,Clavel,F and Perrin,L.Transmission of antiretroviral-drug-resistant HIV-1 variants[J].Lancet,1999,354(9180):729-33.
    160.Little,S.J.Transmission and prevalence of HIV resistance among treatment-naive subjects[J].Antivir Ther,2000,S(l):33-40.
    161.UK Collaborative Group on Monitoring the Transmission of HIV Drug Resistance.Analysis of prevalence of HIV-1 drug resistance in primary infections in the United Kingdom.Bmj,2001,322(7294):1087-8.
    162.Markowitz,M.,Mohri,H.,Mehandru,S.,Shet,A.,Berry,L.,Kalyanaraman,R.,Kim,A.,Chung,C,Jean-Pierre,P.,hlorowitz,A.,La Mar,M.,Wrin,T.,Parkin,N.,Poles,M.,Petropouios,C,Mullen,M.,Boden,D.and Ho,D.D.Infection with multidrug resistant,dual-tropic HIV-1 and rapid progression to AIDS:a case report[J].Lancet,2005,365(9464):1031-8.
    163.Muzammil,S.,Ross,P and Freire,E.A major role for a set of non-active site mutations in the development of HIV-1 protease drug resistance[J].Biochemistry,2003,42(3):631-8.
    164.Cote,H.C.,Brumme,Z.L.and Harrigan,P.R.Human immunodeficiency virus Type 1 protease cleavage site mutations associated with protease inhibitor Cross-resistance selected by indinavir,ritonavir,and/or saquinavir[J].J Virol,2001,75(2):589-94.
    165.Doyon,L.,Croteau,G,Thibeault,D.,Poulin,F,Pilote,L.and Lamarre,D.Second locus involved in human immunodeficiency virus type 1 resistance to protease inhibitors[J].J Virol,1996,70(6):3763-9.
    166.Mammano,F,Petit,C.and Gavel,F.Resistance-associated loss of viral fitness in human immunodeficiency virus type 1:phenotypic analysis of protease and gag coevolution in protease inhibitor-treated patients[J].J Virol,1998,72(9):7632-7.
    167.Zhang,Y.M.,Imamichi,H.,Imamichi,T.,Lane,H.C.,Falloon,J.,Vasudevachari,M.B.and Salzman,N.P.Drug resistance during indinavir therapy is caused by mutations in the protease gene and in its Gag substrate cleavage sites[J].J Virol,1997,71(9):6662-70.
    168.Gao,W.Y,Shirasaka,T.,Johns,D.Q,Broder,S.and Mitsuya,H.Differential phosphorylation of azidothymidine,dideoxycytidine,and dideoxyinosine in resting and activated peripheral blood mononuclear cells[J].J Clin Invest,1993,91(5):2326-33.
    169.Larder,B.A.and Stammers,D.K.Closing in on HIV drug resistance[J].Nat Struct Biol,1999,6(2),103-6.
    170.Sarafianos,S.G.,Das,K.,Ding,J.,Boyer,P L.,Hughes,S.H.and Arnold,E.Touching the heart of HIV-1 drug resistance:the fingers close down on the dNTP at the polymerase active site[J].Chem Biol,1999,6(5):8137-46.
    171.Sarafianos,S.G.,Das,K.,Clark,A.D.,Jr.,Ding,J.,Boyer,P L.,Hughes,S.H.and Arnold,E.Lamivudine (3TC) resistance in HIV-1 reverse transcriptase involves steric hindrance with beta-branched amino acids[J].Proc Natl Acad Sci,1999,96(18):10027-32.
    172.Arion,D.,Kaushik,N.,McCormick,S.,Borkow,G.and Parniak,M.A.Phenotypic mechanism of HIV-1 resistance to 3'-azido-3'-deoxythymidine(AZT):increased polymerization processivity and enhanced sensitivity to Pyrophosphate of the mutant viral reverse transcriptase[J].Biochemistry,1998,37(45):15908-17.
    173.Arion,D.,Sluis-Cremer,N.and Parniak,M.A.Mechanism by which Phosphonoformic acid resistance mutations restore 3'-azido-3'-deoxythymidine (AZT) sensitivity to AZT-resistant HIV-1 reverse transcriptase[J].J Biol Chem,2000,275(13):9251-5.
    174.Boyer,PL.,Sarafianos,S.G,Arnold,E.and Hughes,S.H.Selective excision of AZTMP by drug-resistant human immunodeficiency virus reverse Transcriptase[J]J Virol,2001,75(10):4832-42.
    175.Meyer,P R.,Matsuura,S.E.,Mian,A.M.,So,A.G.and Scott,W.A.A mechanism of AZT resistance:an increase in nucleotide-dependent primer unblocking by mutant HIV-l reverse transcriptase[J].Mol Cell,1999,4(1):35-43.
    176.Meyer,P R.,Matsuura,S.E.,So,A.G.and Scott,W.A.Unblocking of chain-terminated primer by HIV-l reverse transcriptase through a nucleotide-dependent mechanism.Proc Natl Acad Sci,1998,95(23):13471-6.
    177.Esnouf,R.,Ren,J.,Ross,C,Jones,Y,Stammers,D.and Stuart,D.Mechanism of inhibition of HIV-l reverse transcriptase by non-nucleoside inhibitors[J].Nat Struct Biol,1995,2(4):303-8.
    178.Spence,R.A.,Kati,W.M.,Anderson,K.S.and Johnson,K.A.Mechanism of inhibition of HIV-l reverse transcriptase by nonnucleoside inhibitors.Science,1995,267(5200):988-93.
    179.Descamps,D.,Collin,G,Letourneur,E,Apetrei,C,Damond,E,Loussert-Ajaka,I.,Simon,F,Saragosti,S.and Brun-Vezinet,F.Susceptibility of human immunodeficiency virus type 1 group O isolates to antiretroviral agents:in vitro phenotypic and genotypic analyses[J].J Virol,1997,71(11):8893-8.
    180.Hizi,A.,Tal,R.,Shaharabany,M.,Currens,M.J.,Boyd,M.R.,Hughes,S.H.and McMahon,J.B.Specific inhibition of the reverse transcriptase of human immunodeficiency virus type 1 and the chimeric enzymes of human immunodeficiency virus type 1 and type 2 by nonnucleoside inhibitors[J].Antimicrob Agents Chemother,1993,37(5):1037-42.
    181.Yang,X.,Herrmann,C.H.and Rice,A.P.The human immunodeficiency virus Tat proteins specifically associate with TAK in vivo and require the carboxyl-terminal domain of RNA polymerase II for function[J].J Virol,1996,70(7):4576-84.
    182.Conway,B.,Wainberg,M.A.,Hall,D.,Harris,M.,Reiss,P.,Cooper,D.,Vella,S.,Curry,R.,Robinson,P.,Lange,J.M.and Montaner,J.S.Development of drug resistance in patients receiving combinations of zidovudine,didanosine and nevirapine.Aids,2001,15(10):1269-74.
    183.Havlir,D.V,Eastman,S.,Gamst,A.and Richman,D.D.Nevirapine-resistant human immunodeficiency virus:kinetics of replication and estimated prevalence in untreated patients[J].J Virol,1996,70(11):7894-9.
    184.Jackson,J.B.,Becker-Pergola,G,Guay,L.A.,Musoke,P.,Mracna,M.,Fowler,M.G.,Mofenson,L.M.,Mirochnick,M.,Mmiro,F and Eshleman,S.H.Identification of the K103N resistance mutation in Ugandan women receiving nevirapine to prevent HIV-l vertical transmission[J].Aids,2000,14(11):Flll-5.
    185.Wei,X.,Ghosh,S.K.,Taylor,M.E.,Johnson,VA.,Emini,E.A.,Deutsch,P,Lifson,J.D.,Bonhoeffer,S.,Nowak,M.A.,Hahn,B.H.and et al.Viral dynamics in human immunodeficiency virus type 1 infection[J].Nature,1995,373(6510):117-22.
    186.Cunningham,C.K.,Chaix,M.L.,Rekacewicz,C,Britto,P.,Rouzioux,C,Gelber,R.D.,Dorenbaum,A.,Delfraissy,J.F.,Bazin,B.,Mofensonm,Land Sullivan,J.L.Development of resistance mutations in women receiving standard Antiretroviral therapy who received intrapartum nevirapine to prevent perinatal Human immunodeficiency virus type 1 transmission:a substudy of pediatric AIDS clinical trials group protocol 316[J].J Infect Dis,2002,186(2):181-8.
    187.Kantor R,L.E.,Johnston E,Mateta P,Zijenah L,Maldonado Y,Team DKftHS.Rapid flux in non-nucleoside reverse transcriptase inhibitor resistance mutations among subtype C HIV-1-infected women after single dose nevirapine[J].Antiviral Therapy,2003,8:S85.
    188.Hanna,S.L.,Yang,C,Owen,S.M.and Lai,R.B.Variability of critical epitopes within HIV-1 heptad repeat domains for selected entry inhibitors in HIV-infected populations worldwide (corrected)[J].Aids,2002,16(12):1603-8.
    189.Xu,L.,Hue,S.,Taylor,S.,Ratcliffe,D.,Workman,J.A.,Jackson,S.,Cane,P.A.and Pillay,D.Minimal variation in T 20 binding domain of different HIV-1 subtypes from antiretroviral-naive and-experienced patients[J].Aids,2002,16(12):1684-6.
    190.Stanfield-Oakley S,J.J.,McDanal C,Mosier S,Talton L,Jin L,Sista P,Cammack N,Matthews T,Greenberg M.Determinants of susceptibility to enfuvirtide map to gp41 in enfuvirtide-naive HIV-1[J].Antiviral Therapy,2003,8:S25.
    191.Rimsky.L.T.,Shugars,D.C.and Matthews,T.J.Determinants of human immunodeficiency virus type 1 resistance to gp41-derived inhibitory peptides[J].J Virol,1998,72(2):986-93.
    192.Mink M,G.M.,Moshier S,Janumpalli S,Davison D,Jin L,Sista P,Melby T,Lambert D,Cammack N,Sal go M,Matthews TJ.Impact of HIV-1 gp41 amino acid substitutions (positions 36-45) on susceptibility to T 20 (enfuvirtide) in vitro:analysis of primary virus isolates recovered from patients during chronic enfuvirtide treatment and site-directed mutants inNL4-3[J].Antiviral Therapy,2002,7:S17.
    193.Sista PR,M.T.,Greenberg M,Davison D,Jin L,Mosier S,Mink M,Nelson E,Fang L,Cammack N,Salgo M,Mathews TJ.Characterization of baseline and treatment-emergent resistance to T 20 (enfuvirtide) observed in phase Ⅱ clinical trials:substitutions in gp41 amino acids 36-45 and enfuvirtide susceptibility of virus isolates[J]. Antiviral Therapy,2002,7:S16-S17.
    194.Wei,X.,Decker,J.M.,Liu,H.,Zhang,Z.,Arani,R.B.,Kilby,J.M.,Saag,M.S.,Wu,X.,Shaw,G.M.and Kappes,J.C.Emergence of resistant human immunodeficiency virus type 1 in patients receiving fusion inhibitor (T-20) monotherapy[J].Antimicrob Agents Chemother,2002,46(6):1896-905.
    195.Perelson,A.S.,Neumann,A.U.,Markowitz,M.,Leonard,J.M.and Ho,D.D.HIV-l dynamics in vivo:virion clearance rate,infected cell life-span,and viral generation time[J].Science,1996,271(5255):1582-6.
    196.Koch,N.,Yahi,N.,Ariasi,F,Fantini,J.and Tamalet,C.Comparison of human immunodeficiency virus type 1 (HIV-l) protease mutations in HIV-l genomes detected in plasma and in peripheral blood mononuclear cells from patients receiving combination drug therapy[J].J Clin Microbiol,1999,37(5):1595-1597.
    197.Smith,M.S.,Koerber,K.L.and Pagano,J.S.Zidovudine-resistant human immunodeficiency virus type 1 genomes detected in plasma distinct from viral genomes in peripheral blood mononuclear cells[J].J Infect Dis,1993,167(2):445-8.
    198.Hertogs,K.,de Bethune,M.P.,Miller,V,Ivens,T.,Schel,P.,Van Cauwenberge,A.,Van Den Eynde,C,Van Gerwen,V,Azijn,EL,Van llouttc,M.,Peelers,F,Staszewski,S.,Conant,M.,Bloor,S.,Kemp,S.,Larder,B.and Pauwels,R.A rapid method for simultaneous detection of phenotypic resistance to inhibitors of protease and reverse transcriptase in recombinant human immunodeficiency virus type 1 isolates from patients treated with antiretroviral drugs[J].Antimicrob Agents Chemother,1998,42(2):269-76.
    199.Petropoulos,C.J.,Parkin,N.T.,Limoii,K.L.,Lie,YS.,Wrin,T,Eiuang,W.,Tian,H.,Smith,D.,Winslow,GA.,Capon,D.J.and Whitcomb,J.M.A novel phenotypic drug susceptibility assay for human immunodeficiency virus type 1[J].Antimicrob Agents Chemother,2000,44(4):920-8.
    200.Lennerstrand,J.,Stammers,D.K.and Larder,B.A.Biochemical mechanism of human immunodeficiency virus type 1 reverse transcriptase resistance to stavudine[J].Antimicrob Agents Chemother,2001,45(7):2144-6.
    201.Meyer,P R.,Matsuura,S.E.,Schinazi,R.F.,So,A.G and Scott,W.A.Differential removal of thymidine nucleotide analogues from blocked DNA chains by human immunodeficiency virus reverse transcriptase in the presence of physiological concentrations of 2'-deoxynucleoside triphosphates[J].Antimicrob Agents Chemother,2000,44(12):3465-72.
    202.Vray,M.,Meynard,J.L.,Dalban,C,Morand-Joubert,L.,Clavel,F,Brun-Vezinet,F., Peytavin,G,Costagliola,D.and Girard,P M.Predictors of the virological response to a change in the antiretroviral treatment regimen in HIV-1-infected patients enrolled in a randomized trial comparing genotyping,phenotyping and standard of care (Narval trial,ANRS 088)[J].Antivir Ther,2003,8(5):427-34.
    203.Stuyver,L.,Wyseur,A.,Rombout,A.,Louwagie,J.,Scarcez,T.,Verhofstede,C,Rimland,D.,Schinazi,R.F and Rossau,R.Line probe assay for rapid detection of drug-selected mutations in the human immunodeficiency virus type 1 reverse transcriptase gene[J].Antimicrob Agents Chemother,1997,41(2):284-91.
    204.Kozal,M.J.,Shah,N.,Shen,N.,Yang,R.,Fucini,R.,Merigan,T.C.,Richman,D.D.,Morris,D.,Hubbell,E.,Chee,M.and Gingeras,T.R.Extensive polymorphisms observed in HIV-1 Glade B protease gene using high-density oligonucleotide arrays[J].Nature Medicine,1996,2(7):753-759.
    205.Edelstein,R.E.,Nickerson,D.A.,Tobe,V O.,Manns-Arcuino,L.A.and Frenkel,L.M.Oligonucleotide ligation assay for detecting mutations in the human immunodeficiency virus type 1 pol gene that are associated with resistance to zidovudine,didanosine,and lamivudine[J].J Clin Microbiol,1998,36(2):569-72.
    206.Gunthard,H.F,Wong,J.K.,Ignacio,C.C.,Havlir,D.V and Richman,D.D.Comparative performance of high-density oligonucleotide sequencing and dideoxynucleotide sequencing of HIV type 1 pol from clinical samples[J].AIDS Res Hum Retroviruses,1998,14(10):869-76.
    207.Diaz,R.S.,Zhang,L.,Busch,M.P,Mosley,J.W.and Mayer,A.Divergence of HIV-1 quasispecies in an epidemiologic cluster[J].Aids,1997,11(4):415-22.
    208.Liu,S.L.,Schacker,T.,Musey,L.,Shriner,D.,McElrath,M.J.,Corey,L.and Mullins,J.I.Divergent patterns of progression to AIDS after infection from the same source:human immunodeficiency virus type 1 evolution and antiviral responses[J].J Virol,1997,71(6):4284-95.
    209.Long,E.M.,Martin,H.L.,Jr.,Kreiss,J.K.,Rainwater,S.M.,Lavreys,L.,Jackson,D.J.,Rakwar,J.,Mandaiiya,K.and Overbaugh,J.Gender differences in HIV-1 diversity at time of infection[J].Nat Med,2000,6(1):71-5.
    210.Gonzales,M.J.,Machekano,R.N.and Shafer,R.W.Human immunodeficiency virus type 1 reverse-transcriptase and protease subtypes:classification,amino acid mutation patterns,and prevalence in a northern California clinic-based population[J].J Infect Dis,2001,84(8):998-1006.
    211.Caride,E.,Hertogs,K.,Larder,B.,Dehertogh,P.,Brindeiro,R.,Machado,E.,de Sa,C.A.,Eyer-Silva,W.A.,Sion,F.S.,Passioni,L.F.,Menezes,J.A.,Calazans,A.R.and Tanuri,A.Genotypic and phenotypic evidence of different drug-resistance mutation patterns between B and non-B subtype isolates of human immunodeficiency virus type 1 found in Brazilian patients failing HAART[J].Virus Genes,2001,23(2):193-202.
    212.Palmer,S.,Alaeus,A.,Albert,J.and Cox,S.Drug susceptibility of subtypes A,B,C,D,and E human immunodeficiency virus type 1 primary isolates[J].AIDS Res Hum Retroviruses,1998,14(2):157-62.
    213.Kantor R,K.D.,Camacho R,Harrigan PR,Tanuri A,Pillay D,Vandamme A-M,Phanuphak P,Sugiura W,Soriano V,Morris L,Grossman Z,Brigido LF,Schapiro J,Shafer RW.Genotypic analyses of RT and protease sequences from persons infected with non-subtype B HIV-1.[abstract 623].10th Conference on Retroviruses and Opportunistic Infections.2003:214.Brenner,B.,Turner,D.,01iveira,M.,Moisi,D.,Detorio,M.,Carobene,M.,Marlink,R.G.,Sc hapiro,J.,Roger,M.and Wainberg,M.A.A V106M mutation in HIV-1 clade C viruses exposed to efavirenz confers cross-resistance to Non-nucleoside reverse transcriptase inhibitors[J].Aids,2003,17(1):F1-5.