Identification of near full-length genome structures of new HIV-1 recombinant strains

doi:10.3969/j.issn.1673-8640.2023.11.002

Abstract

Abstract:

Objective To analyze the near full-length genome（NFLG） structures of 3 human immunodeficiency virus（HIV）-1 with unknown subtypes. Methods The NFLG of 3 HIV-1 men who have sex with men（MSM） were amplified by near-terminal dilution method，and subtypes and genetic recombinant maps were confirmed by the analysis of phylogenetic tree and gene recombination breakpoints. Results The results of Neighbor-joining evolutionary tree analysis showed that all the 3 HIV-1 sequences were separate branches，which might be new recombinant strains. The comprehensive analysis results of online jpHMM and SimPlot v3.5.1 software showed that NFLG 110 and NFLG 171 were CRF07_BC and CRF01_AE，respectively，and NFLG 150 were CRF01_AE and CRF07_BC second-generation recombinant strains. The results of gene recombination breakpoint analysis showed that the recombination mode of NFLG 150 was based on the full-length CRF07_BC genome as skeleton，and CRF01_AE gene fragments with lengths of about 60 and 80 bp were inserted into gag and env regions，respectively. Conclusions New HIV-1 recombinant strains from CRF01_AE and CRF07_BC have been found in MSM population. It is critical for us to monitor continually new HIV-1 recombinant strains in the sexual contact population especially MSM.

Key words: Human immunodeficiency virus, Second-generation recombinant gene, Phylogenetic tree, Gene recombination breakpoint, Near full-length genome sequence

CLC Number:

R373.9

LU Xinli, LIU Yong, LI Yan, WANG Yingying, AN Ning, LIU Meng. Identification of near full-length genome structures of new HIV-1 recombinant strains[J]. Laboratory Medicine, 2023, 38(11): 1015-1019.

Figures/Tables 4

References 20

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