HIV-1基因亚型分布及流行现状
摘要
<正>自1981年首次文献报道艾滋病以来,三十五年来人类免疫缺陷病毒(human immunodeficiency virus,HIV)在全球持续蔓延,根据联合国艾滋病规划署(UNAIDS)公布的数字显示[1],截止2015年底全球存活的HIV/AIDS高达3 600多万,当年新感染者180万,死亡94万,艾滋病成为威胁人类健康的首要传染病。随着艾滋病的全球流行,HIV病毒亚型和亚亚型不断增加,各种新型流行重组株(circulating recombinants forms,CRFs)和涉及两
引文
[1] UNAIDSFACT SHEET–JULY 2018.[EB/OL] http://www.unaids.org/sites/default/files/media_asset/UNAIDS_FactSheet_en.pdf.
[2] Robertson DL,Anderson JP,Bradac JA,et al.HIV-1 Nomenclature Proposal:A Reference Guide to HIV-1 Classification(1999)[J].Science,2000,288(5463):55-56.
[3] Vallari A,Holzmayer V,Harris B,et al.Confirmation of putative HIV-1 group P in Cameroon[J].J Virol,2011,85:1403–1407.
[4] Vidal N,Mulanga C,Bazepeo SE,et al. Identification and molecular characterization of subsubtype A4 in central Africa[J].AIDS Res Hum Retroviruses,2006,22(2):182-187.
[5] Yamaguchi J,Devare SG,Brennan CA.Identification of a new HIV-2 subtype based on phylogenetic analysis of full-length genomic sequence[J].AIDS Res Hum Retroviruses,2000,16(9):925-930.
[6] Gao F,Bailes E,Robertson DL,et al.Origin of HIV-1 in the chimpanzee Pan troglodytes troglodytes[J].Nature,1999,397(6718):436-441.
[7] D'arc M, Ayouba A, Esteban A,et al.Origin of the HIV-1 group O epidemic in western lowland gorillas[J].Proc Natl Acad Sci U S A,2015,112(11):E1343-1352.
[8] Hemelaar J,Gouws E,Ghys PD,et al.Global trends in molecular epidemiology of HIV-1 during 2000–2007[J].AIDS,2011,25:679-689.
[9] HIV Sequence Database.Distribution of all HIV-1 sequences:WORLD[EB/OL].[2018-03-14].https://www.hiv.lanl.gov/components/sequence/HIV/geo/geo.comp.
[10] HIV Sequence Database.HIV circulating recombinants forms(CRFs)[EB/OL].[2018-03-14],http://www.hiv.lanl.gov/content/sequence/HIV/CRFs/CRFs.html.
[11] HIV Sequence Database. Distribution of all HIV-1 sequences: ASIA[EB/OL].[2018-03-14],https://www.hiv.lanl.gov/components/sequence/HIV/geo/geo.comp?form=all&organism=HIV-1®ion=asi&path=/home/httpd/htdocs/components/sequence/HIV/geo.
[12] Chen Y, Hora B, DeMarco T,et al.Fast Dissemination of New HIV-1 CRF02/A1 Recombinants in Pakistan[J]. PLoS One,2016,11(12):e0167839.
[13] Karade S,Pandey S,Gianchandani S,et al.Near Full-Length Genomic Characterization of a Novel CRF 01_AE/C Recombinant from Western India[J].Aids Res Hum Retroviruses,2015, 31(12):1269.
[14] Kim GJ,Nam JG,Shin BG,et al. National Survey of Prevalent HIV Strains: Limited Genetic Variation of Korean HIV-1 Clade B Within the Population of Korean Men Who Have Sex With Men[J].J Acquir Immune Defic Syndr,2008,48(2):127-32.
[15] Davaalkham J,Unenchimeg P,Baigalmaa C,et al.Identification of a current hot spot of HIV type 1 transmission in Mongolia by molecular epidemiological analysis[J].Aids Res Hum Retroviruses,2011,27(27):1073-1080.
[16] Matsumoto C, Shinohara N, Sobata R,et al. Genetic analysis of HIV-1 in Japan: A comprehensive analysis of donated blood[J].Jpn J Infect Dis,2017,70(2):136-142.
[17] HIV Sequence Database. Distribution of all HIV-1 sequences: CHINA[EB/OL].[2018-03-14],https://www.hiv.lanl.gov/components/sequence/HIV/geo/geo.comp?form=all&organism=HIV-1®ion=cn&path=/home/httpd/htdocs/components/sequence/HIV/geo.
[18] He X,Xing H,Ruan YH,et al.A Comprehensive Mapping of HIV-1 Genotypes in Various Risk Groups and Regions across China Based on a Nationwide Molecular Epidemiologic Survey[J]. PLoS One,2012,7(10):e47289.
[19] 邵一鸣,苏玲,邢辉,等.全国范围艾滋病毒分子流行病学研究[J].医学研究杂志,2000(11):19-20.
[20] McClutchan FE,Carr JK,Murphy D,et al.Precise mapping of recombination breakpoints suggests a common parent of two BC recombinant HIV type 1 strains circulating in China[J]. AIDS Res Hum Retroviruses,2002,18(15):1135-40.
[21] 董永慧,王莉,何翠,等.2010-2013年新疆HIV亚型和耐药传播研究[J].中国艾滋病性病,2015,21(1):20-23.
[22] 孙定勇,刘佳,许巍,等.河南省302例新确证HIV感染者和艾滋病患者中HIV毒株基因亚型分布和原发耐药研究[J].中华预防医学杂志, 2016, 50(8):733-737.
[23] 李健健,李惠琴,李敬云,等.云南省2012-2014年 HIV-1流行毒株亚型分布特征[J].中国艾滋病性病,2016,22(3):145-149.
[24] 王洪,梁冰玉,周波,等.2010—2012年广西壮族自治区HIV-1流行株pol基因亚型的分布情况[J]. 中华预防医学杂志,2016,50(1):79-84.
[25] 苏玲,杨洪,胡莹,等.四川省2014年HIV-1分子流行病学调查[J].中国艾滋病性病,2016,22(12):946-949.
[26] 邓永岳,张春阳,严延生,等.福建省HIV-1新近感染者流行毒株基因亚型及其流行特征分析[J]. 中华流行病学杂志,2014,35(6):714-719.
[27] 徐晓琴,郭宏雄,胡海洋,等. 江苏省连续3年HIV-1耐药警戒线及流行亚型的调查研究[J].南京医科大学学报(自然科学版),2015,35(9):1329-1332.
[28] 杨介者,陈婉君,张文君,等.浙江省2015年HIV分子亚型特征及其传播关系研究[J].中华流行病学杂志,2017,38(11):1554-1556.
[29] 郑敏娜,宁铁林,高永军,等.天津市2015年HIV流行和传播的分子流行病学特征分析[J]. 中华流行病学杂志, 2016, 37(8):1142-1147.
[30] 郑敏,吴健,倪莹青,等.上海市2013年人类免疫缺陷病毒-1型分子流行病学调查[J]. 中华传染病学杂志,2015,33(12):758-761.
[31] 张佳峰,杨介者,潘晓红,等.浙江省男男性行为人群HIV-1新近感染者的毒株亚型和传播簇研究[J]. 中华流行病学杂志,2015,36(1):61-66.
[32] 吴健,赵明惠,刘开明,等.2008-2015年粤赣口岸出入境人员HIV感染者基因亚型分析研究[J].中国艾滋病性病,2016,22(4):228-236.
[33] 刘胜牙,朱玉兰,冯毅,等.中国首例HIV-1 CRF22_01A1亚型毒株的鉴定[J].中国国境卫生检疫杂志,2016,39(2):83-85.
[34] Ragonnet-Cronin M,Lycett SJ,Hodcroft EB,et al.Transmission of Non-B HIV Subtypes in the United Kingdom Is IncreasinglyDriven by Large Non-Heterosexual Transmission Clusters[J].J Infect Dis,2016,213(9):1410-1418.
[35] Hauser A , Hofmann A , Hanke K,et al. National molecular surveillance of recently acquired HIV infections in Germany, 2013 to 2014[J]. Euro Surveill,2017 ,22(2). pii: 30436.
[36] Chaillon A , Essat A , Frange P, et al. Spatiotemporal dynamics of HIV-1 transmission in France (1999-2014) and impact of targeted prevention strategies[J]. Retrovirology,2017,14(1):15.
[37] Siemieniuk RA , Beckthold B , Gill MJ,et al. Increasing HIV subtype diversity and its clinical implications in a sentinel North American population[J]. Can J Infect Dis Med Microbiol,2013,24(2):69-73.
[38] Oster AM, Switzer WM, Hernandez AL,et al. Increasing HIV-1 subtype diversity in seven states, United States, 2006-2013[J]. Ann Epidemiol,2017,27(4):244-251.
[39] Lai A, Bozzi G, Franzetti M,et al. HIV-1 A1 Subtype Epidemic in Italy Originated from Africa and Eastern Europeand Shows a High Frequency of Transmission Chains Involving IntravenousDrug Users[J]. PLoS One,2016,11(1):e0146097.
[40] Chook JB,Ong LY,Takebe Y,et al.Molecular detection of HIV-1 subtype B, CRF01_AE, CRF33_01B, and newly emerging recombinant lineages in Malaysia[J].Am J Trop Med Hyg,2015,92(3):507.
[41] Chow WZ, Takebe Y, Syafina NE,et al. A newly emerging HIV-1 recombinant lineage (CRF58_01B) disseminating among people who inject drugs in Malaysia[J]. PLoS One,2014,9(1):e85250.
[42] Cheong HT, Chow WZ, Takebe Y ,et al. Genetic Characterization of a Novel HIV-1 Circulating Recombinant Form(CRF74_01B) Identified among Intravenous Drug Users in Malaysia:Recombination History and Phylogenetic Linkage with Previously DefinedRecombinant Lineages[J]. PLoS One,2015,10(7):e0133883.
[43] Li X, Ning C, He X, et al. Genome Sequences of a Novel HIV-1 Circulating Recombinant Form (CRF61_BC) Identified among Heterosexuals in China[J]. Genome Announc,2013,1(3). pii: e00326-13.
[44] Hu Y, Wan Z, Zhou YH, et al. Identification of Two New HIV-1 Circulating Recombinant Forms (CRF87_cpxand CRF88_BC) from Reported Unique Recombinant Forms in Asia[J]. AIDS Res Hum Retroviruses,2017,33(4):353-358.
[45] Feng Y,Takebe Y,Wei H,et al.Geographic origin and evolutionary history of China’s two predominant HIV-1 circulating recombinant forms, CRF07_BC and CRF08_BC[J]. Sci Rep,2016,6:19279.
[46] Huang A, Hogan JW, Luo X,et al. Global Comparison of Drug Resistance Mutations After First-Line Antiretroviral Therapy Across Human Immunodeficiency Virus-1 Subtypes[J]. Open Forum Infect Dis,2015,3(2):ofv158.
[2] Robertson DL,Anderson JP,Bradac JA,et al.HIV-1 Nomenclature Proposal:A Reference Guide to HIV-1 Classification(1999)[J].Science,2000,288(5463):55-56.
[3] Vallari A,Holzmayer V,Harris B,et al.Confirmation of putative HIV-1 group P in Cameroon[J].J Virol,2011,85:1403–1407.
[4] Vidal N,Mulanga C,Bazepeo SE,et al. Identification and molecular characterization of subsubtype A4 in central Africa[J].AIDS Res Hum Retroviruses,2006,22(2):182-187.
[5] Yamaguchi J,Devare SG,Brennan CA.Identification of a new HIV-2 subtype based on phylogenetic analysis of full-length genomic sequence[J].AIDS Res Hum Retroviruses,2000,16(9):925-930.
[6] Gao F,Bailes E,Robertson DL,et al.Origin of HIV-1 in the chimpanzee Pan troglodytes troglodytes[J].Nature,1999,397(6718):436-441.
[7] D'arc M, Ayouba A, Esteban A,et al.Origin of the HIV-1 group O epidemic in western lowland gorillas[J].Proc Natl Acad Sci U S A,2015,112(11):E1343-1352.
[8] Hemelaar J,Gouws E,Ghys PD,et al.Global trends in molecular epidemiology of HIV-1 during 2000–2007[J].AIDS,2011,25:679-689.
[9] HIV Sequence Database.Distribution of all HIV-1 sequences:WORLD[EB/OL].[2018-03-14].https://www.hiv.lanl.gov/components/sequence/HIV/geo/geo.comp.
[10] HIV Sequence Database.HIV circulating recombinants forms(CRFs)[EB/OL].[2018-03-14],http://www.hiv.lanl.gov/content/sequence/HIV/CRFs/CRFs.html.
[11] HIV Sequence Database. Distribution of all HIV-1 sequences: ASIA[EB/OL].[2018-03-14],https://www.hiv.lanl.gov/components/sequence/HIV/geo/geo.comp?form=all&organism=HIV-1®ion=asi&path=/home/httpd/htdocs/components/sequence/HIV/geo.
[12] Chen Y, Hora B, DeMarco T,et al.Fast Dissemination of New HIV-1 CRF02/A1 Recombinants in Pakistan[J]. PLoS One,2016,11(12):e0167839.
[13] Karade S,Pandey S,Gianchandani S,et al.Near Full-Length Genomic Characterization of a Novel CRF 01_AE/C Recombinant from Western India[J].Aids Res Hum Retroviruses,2015, 31(12):1269.
[14] Kim GJ,Nam JG,Shin BG,et al. National Survey of Prevalent HIV Strains: Limited Genetic Variation of Korean HIV-1 Clade B Within the Population of Korean Men Who Have Sex With Men[J].J Acquir Immune Defic Syndr,2008,48(2):127-32.
[15] Davaalkham J,Unenchimeg P,Baigalmaa C,et al.Identification of a current hot spot of HIV type 1 transmission in Mongolia by molecular epidemiological analysis[J].Aids Res Hum Retroviruses,2011,27(27):1073-1080.
[16] Matsumoto C, Shinohara N, Sobata R,et al. Genetic analysis of HIV-1 in Japan: A comprehensive analysis of donated blood[J].Jpn J Infect Dis,2017,70(2):136-142.
[17] HIV Sequence Database. Distribution of all HIV-1 sequences: CHINA[EB/OL].[2018-03-14],https://www.hiv.lanl.gov/components/sequence/HIV/geo/geo.comp?form=all&organism=HIV-1®ion=cn&path=/home/httpd/htdocs/components/sequence/HIV/geo.
[18] He X,Xing H,Ruan YH,et al.A Comprehensive Mapping of HIV-1 Genotypes in Various Risk Groups and Regions across China Based on a Nationwide Molecular Epidemiologic Survey[J]. PLoS One,2012,7(10):e47289.
[19] 邵一鸣,苏玲,邢辉,等.全国范围艾滋病毒分子流行病学研究[J].医学研究杂志,2000(11):19-20.
[20] McClutchan FE,Carr JK,Murphy D,et al.Precise mapping of recombination breakpoints suggests a common parent of two BC recombinant HIV type 1 strains circulating in China[J]. AIDS Res Hum Retroviruses,2002,18(15):1135-40.
[21] 董永慧,王莉,何翠,等.2010-2013年新疆HIV亚型和耐药传播研究[J].中国艾滋病性病,2015,21(1):20-23.
[22] 孙定勇,刘佳,许巍,等.河南省302例新确证HIV感染者和艾滋病患者中HIV毒株基因亚型分布和原发耐药研究[J].中华预防医学杂志, 2016, 50(8):733-737.
[23] 李健健,李惠琴,李敬云,等.云南省2012-2014年 HIV-1流行毒株亚型分布特征[J].中国艾滋病性病,2016,22(3):145-149.
[24] 王洪,梁冰玉,周波,等.2010—2012年广西壮族自治区HIV-1流行株pol基因亚型的分布情况[J]. 中华预防医学杂志,2016,50(1):79-84.
[25] 苏玲,杨洪,胡莹,等.四川省2014年HIV-1分子流行病学调查[J].中国艾滋病性病,2016,22(12):946-949.
[26] 邓永岳,张春阳,严延生,等.福建省HIV-1新近感染者流行毒株基因亚型及其流行特征分析[J]. 中华流行病学杂志,2014,35(6):714-719.
[27] 徐晓琴,郭宏雄,胡海洋,等. 江苏省连续3年HIV-1耐药警戒线及流行亚型的调查研究[J].南京医科大学学报(自然科学版),2015,35(9):1329-1332.
[28] 杨介者,陈婉君,张文君,等.浙江省2015年HIV分子亚型特征及其传播关系研究[J].中华流行病学杂志,2017,38(11):1554-1556.
[29] 郑敏娜,宁铁林,高永军,等.天津市2015年HIV流行和传播的分子流行病学特征分析[J]. 中华流行病学杂志, 2016, 37(8):1142-1147.
[30] 郑敏,吴健,倪莹青,等.上海市2013年人类免疫缺陷病毒-1型分子流行病学调查[J]. 中华传染病学杂志,2015,33(12):758-761.
[31] 张佳峰,杨介者,潘晓红,等.浙江省男男性行为人群HIV-1新近感染者的毒株亚型和传播簇研究[J]. 中华流行病学杂志,2015,36(1):61-66.
[32] 吴健,赵明惠,刘开明,等.2008-2015年粤赣口岸出入境人员HIV感染者基因亚型分析研究[J].中国艾滋病性病,2016,22(4):228-236.
[33] 刘胜牙,朱玉兰,冯毅,等.中国首例HIV-1 CRF22_01A1亚型毒株的鉴定[J].中国国境卫生检疫杂志,2016,39(2):83-85.
[34] Ragonnet-Cronin M,Lycett SJ,Hodcroft EB,et al.Transmission of Non-B HIV Subtypes in the United Kingdom Is IncreasinglyDriven by Large Non-Heterosexual Transmission Clusters[J].J Infect Dis,2016,213(9):1410-1418.
[35] Hauser A , Hofmann A , Hanke K,et al. National molecular surveillance of recently acquired HIV infections in Germany, 2013 to 2014[J]. Euro Surveill,2017 ,22(2). pii: 30436.
[36] Chaillon A , Essat A , Frange P, et al. Spatiotemporal dynamics of HIV-1 transmission in France (1999-2014) and impact of targeted prevention strategies[J]. Retrovirology,2017,14(1):15.
[37] Siemieniuk RA , Beckthold B , Gill MJ,et al. Increasing HIV subtype diversity and its clinical implications in a sentinel North American population[J]. Can J Infect Dis Med Microbiol,2013,24(2):69-73.
[38] Oster AM, Switzer WM, Hernandez AL,et al. Increasing HIV-1 subtype diversity in seven states, United States, 2006-2013[J]. Ann Epidemiol,2017,27(4):244-251.
[39] Lai A, Bozzi G, Franzetti M,et al. HIV-1 A1 Subtype Epidemic in Italy Originated from Africa and Eastern Europeand Shows a High Frequency of Transmission Chains Involving IntravenousDrug Users[J]. PLoS One,2016,11(1):e0146097.
[40] Chook JB,Ong LY,Takebe Y,et al.Molecular detection of HIV-1 subtype B, CRF01_AE, CRF33_01B, and newly emerging recombinant lineages in Malaysia[J].Am J Trop Med Hyg,2015,92(3):507.
[41] Chow WZ, Takebe Y, Syafina NE,et al. A newly emerging HIV-1 recombinant lineage (CRF58_01B) disseminating among people who inject drugs in Malaysia[J]. PLoS One,2014,9(1):e85250.
[42] Cheong HT, Chow WZ, Takebe Y ,et al. Genetic Characterization of a Novel HIV-1 Circulating Recombinant Form(CRF74_01B) Identified among Intravenous Drug Users in Malaysia:Recombination History and Phylogenetic Linkage with Previously DefinedRecombinant Lineages[J]. PLoS One,2015,10(7):e0133883.
[43] Li X, Ning C, He X, et al. Genome Sequences of a Novel HIV-1 Circulating Recombinant Form (CRF61_BC) Identified among Heterosexuals in China[J]. Genome Announc,2013,1(3). pii: e00326-13.
[44] Hu Y, Wan Z, Zhou YH, et al. Identification of Two New HIV-1 Circulating Recombinant Forms (CRF87_cpxand CRF88_BC) from Reported Unique Recombinant Forms in Asia[J]. AIDS Res Hum Retroviruses,2017,33(4):353-358.
[45] Feng Y,Takebe Y,Wei H,et al.Geographic origin and evolutionary history of China’s two predominant HIV-1 circulating recombinant forms, CRF07_BC and CRF08_BC[J]. Sci Rep,2016,6:19279.
[46] Huang A, Hogan JW, Luo X,et al. Global Comparison of Drug Resistance Mutations After First-Line Antiretroviral Therapy Across Human Immunodeficiency Virus-1 Subtypes[J]. Open Forum Infect Dis,2015,3(2):ofv158.