HIV-1 subtyping using phylogenetic analysis of pol gene sequences.
作者： C Pasquier , N Millot , R Njouom , K Sandres , M Cazabat
DOI: 10.1016/S0166-0934(01)00272-5
关键词:
摘要: HIV-1 pol gene sequencing is now used routinely in France to identify mutations associated with resistance reverse transcriptase (RT) or protease (PR) inhibitors. These sequences may also provide other information, such as the subtype. subtyping was compared using RT and PR heteroduplex mobility assay (HMA) of envelope gene. The genes 51 samples that had been subtyped earlier by HMA were sequenced. Sequences aligned subtypes determined phylogenetic analysis reference HIV sequences. gave following subtypes: A (20), B (19), C (1), D (3), F G (3) CRF01-AE (4). Phylogenetic gave: (5), (2), (6), J CRF01_AE (4), CFR02_AG (7) undetermined (2). did not infer sufficient confidence. agreement nine cases. can variants from subtype RT. It shown could a useful method for subtyping. length amplicon relative performance each primer pair this study favoured tool. One potential advantage over env ability some circulating recombinant forms (CRFs).
elsevier.com
sci-hub.se 参考文章(18)
Miguel E. Quiñones-Mateu, Recombination in HIV-1: Update and Implications ,(2001)
P Essunger, D D Ho, A S Perelson, Dynamics of HIV-1 and CD4+ lymphocytes in vivo. AIDS. ,(1997)
M Cornelissen, G Kampinga, F Zorgdrager, J Goudsmit, Human immunodeficiency virus type 1 subtypes defined by env show high frequency of recombinant gag genes. The UNAIDS Network for HIV Isolation and Characterization. Journal of Virology. ,vol. 70, pp. 8209- 8212 ,(1996) , 10.1128/JVI.70.11.8209-8212.1996
Feng Gao, David L. Robertson, Catherine D. Carruthers, Sandra G. Morrison, Bixi Jian, Yalu Chen, Françoise Barré-Sinoussi, Marc Girard, Alagarsamy Srinivasan, Alash’le G. Abimiku, George M. Shaw, Paul M. Sharp, Beatrice H. Hahn, A comprehensive panel of near-full-length clones and reference sequences for non-subtype B isolates of human immunodeficiency virus type 1. Journal of Virology. ,vol. 72, pp. 5680- 5698 ,(1998) , 10.1128/JVI.72.7.5680-5698.1998
Bradley D. Preston, Joseph P. Dougherty, Mechanisms of retroviral mutation Trends in Microbiology. ,vol. 4, pp. 16- 21 ,(1996) , 10.1016/0966-842X(96)81500-9
Kirsi Liitsola, Irina Tashkinova, Tiina Laukkanen, Galina Korovina, Tatjana Smolskaja, Oleg Momot, Nikolai Mashkilleyson, Saulius Chaplinskas, Henrikki Brummer-Korvenkontio, Jussi Vanhatalo, Pauli Leinikki, Mika O. Salminen, HIV-1 genetic subtype A/B recombinant strain causing an explosive epidemic in injecting drug users in Kaliningrad. AIDS. ,vol. 12, pp. 1907- 1919 ,(1998) , 10.1097/00002030-199814000-00023
David D. Ho, Avidan U. Neumann, Alan S. Perelson, Wen Chen, John M. Leonard, Martin Markowitz, Rapid turnover of plasma virions and CD4 lymphocytes in HIV-1 infection Nature. ,vol. 373, pp. 123- 126 ,(1995) , 10.1038/373123A0
E. Delwart, E. Shpaer, J Louwagie, F. McCutchan, M Grez, H Rubsamen-Waigmann, J. Mullins, Genetic relationships determined by a DNA heteroduplex mobility assay: analysis of HIV-1 env genes Science. ,vol. 262, pp. 1257- 1261 ,(1993) , 10.1126/SCIENCE.8235655
S. Kwok, R. Higuchi, Avoiding false positives with PCR Nature. ,vol. 339, pp. 237- 238 ,(1989) , 10.1038/339237A0
Elisabeth Couturier, Florence Damond, Pierre Roques, Hervé Fleury, Francis Barin, Jean-Baptiste Brunet, Françoise Brun-Vézinet, François Simon, HIV-1 diversity in France, 1996-1998. AIDS. ,vol. 14, pp. 289- 296 ,(2000) , 10.1097/00002030-200002180-00011