Institute of Microbiology and Immunology, Faculty of Medicine, University of Ljubljana, 1000 Ljubljana, Slovenia.
Viruses. 2020 Jan 3;12(1):63. doi: 10.3390/v12010063.
Surveillance of HIV circulating recombinant forms (CRFs) is important because HIV diversity can affect various aspects of HIV infection from prevention to diagnosis and patient management. A comprehensive collection of sequences obtained from individuals diagnosed with HIV-1 from 2000 to 2016 in Slovenia was subtyped to identify possible unique recombinant forms (URFs). Selected samples were subjected to near full-length genome (NFLG) sequencing and detailed recombination analyses. Discordant subtyping results were observed for 68/387 (17.6%) sequences and 20 sequences were identified as the most probable URFs and selected for NFLG characterization. Further, 11 NFLGs and two sequences of >7000 base pairs were obtained. Seven sequences were identified as "pure" subtypes or already characterized CRFs: subtype B ( = 5), sub-subtype A6 ( = 1), and CRF01_AE ( = 1). The remaining six sequences were determined to be URFs; four displayed a single recombination event and two exhibited a complex recombination pattern involving several subtypes or CRFs. Finally, three HIV strains were recognized as having epidemic potential and could be further characterized as new CRFs. Our study shows that the identification of new CRFs is possible, even in countries where HIV diversity is considered limited, emphasizing the importance of the surveillance of HIV recombinant forms.
对 HIV 循环重组形式（CRF）进行监测很重要，因为 HIV 的多样性可能会影响 HIV 感染的各个方面，从预防到诊断和患者管理。综合收集了 2000 年至 2016 年期间在斯洛文尼亚被诊断为 HIV-1 的个体的序列，对其进行亚分型以鉴定可能存在的独特重组形式（URF）。选择了部分样本进行全长基因（NFLG）测序和详细的重组分析。对 68/387（17.6%）个序列进行了不一致的亚分型鉴定，有 20 个序列被鉴定为最可能的 URF，并选择进行 NFLG 特征分析。此外，还获得了 11 个全长基因和 2 个超过 7000 个碱基的序列。7 个序列被鉴定为“纯”亚型或已经确定的 CRF：亚型 B（=5）、亚-subtype A6（=1）和 CRF01_AE（=1）。其余 6 个序列被确定为 URF；其中 4 个显示单一重组事件，2 个显示涉及多个亚型或 CRF 的复杂重组模式。最后，三种 HIV 毒株被认为具有流行潜力，可以进一步鉴定为新的 CRF。我们的研究表明，即使在 HIV 多样性被认为有限的国家，也有可能发现新的 CRF，这强调了监测 HIV 重组形式的重要性。
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