Udeze Augustine O, Olaleye David O, Odaibo Georgina N
Department of Virology, College of Medicine, University College Hospital, Ibadan, Nigeria.
Virology Unit, Department of Microbiology, University of Ilorin, P.M.B 1515, Ilorin, Nigeria.
Heliyon. 2020 Aug 4;6(8):e04310. doi: 10.1016/j.heliyon.2020.e04310. eCollection 2020 Aug.
Human Immunodeficiency Virus is characterized by high degree of genetic diversity with marked differences in its geographic distribution even within a country. This study was designed to identify the strains of HIV-1 circulating among infected individuals in southeastern parts of Nigeria. Genomic DNA was extracted from blood samples of 30 HIV-1 infected individuals from Anambra, Delta and Imo states of southeastern Nigeria. Portions of the genome corresponding to entire p24 , entire and C2-V3 genes were amplified by nested PCR, sequenced using Sanger's method and phylogenetically analysed. Out of the 30 samples sequenced, 17, 28 and 14 readable sequences were obtained for , and regions respectively. The most prevalent subtypes were CRF02_AG (41.2% in , 57.1% in and 50.0% in ) and G (29.4% in , 35.7% in and 35.7% in ). Other subtypes identified include A (17.7% in , 7.1% in ) and J (7.1% in ). Also 2 sequences each in (11.8%) and (7.1%) regions were unclassified but preliminary analysis showed they are recombinants. Furthermore, 71.4% of the isolates with sequences in the 3 regions and 26.7% of those with sequences in 2 genomic regions were recombinant forms. CRF02_AG and subtype G are the predominant HIV-1 strains circulating among infected individuals in southeastern Nigeria. Preliminary analysis results of unclassified sequences suggest that they are new recombinants.
人类免疫缺陷病毒具有高度的遗传多样性，即使在一个国家内其地理分布也存在显著差异。本研究旨在鉴定在尼日利亚东南部感染个体中传播的HIV-1毒株。从尼日利亚东南部阿南布拉州、三角州和伊莫州的30名HIV-1感染个体的血液样本中提取基因组DNA。通过巢式PCR扩增对应于整个p24、整个env和C2-V3基因的基因组部分，采用桑格法进行测序并进行系统发育分析。在测序的30个样本中，分别获得了17个、28个和14个可读序列用于env、p24和C2-V3区域。最流行的亚型是CRF02_AG（env区域为41.2%，p24区域为57.1%，C2-V3区域为50.0%）和G（env区域为29.4%，p24区域为35.7%，C2-V3区域为35.7%）。鉴定出的其他亚型包括A（env区域为17.7%，p24区域为7.1%）和J（p24区域为7.1%）。此外，env（11.8%）和p24（7.1%）区域各有2个序列未分类，但初步分析表明它们是重组体。此外，在3个区域有序列的分离株中，71.4%以及在2个基因组区域有序列的分离株中，26.7%是重组形式。CRF02_AG和G亚型是尼日利亚东南部感染个体中传播的主要HIV-1毒株。未分类序列的初步分析结果表明它们是新的重组体。
