Near-Full-Length Genomic Characterization of Two Novel Unique Recombinants (CRF01_AE/CRF07_BC) in Shenzhen, Guangdong Province, China.

Abstract

Extensive cocirculation of CRF01_AE and CRF07_BC in China has created favorable conditions for ongoing intersubtype recombination, contributing to increasing genetic complexity within the local HIV-1 epidemic. In this study, two novel unique recombinant forms composed of CRF01_AE and CRF07_BC were identified in Shenzhen, Guangdong Province. Near-full-length genome sequences were obtained for isolates LS11654 and LS16824. Phylogenetic analysis indicated that both sequences clustered within a CRF01_AE-/CRF07_BC-related lineage but were distinct from previously reported strains. Recombination analysis revealed markedly different mosaic structures: LS11654 contained two recombination breakpoints, whereas LS16824 exhibited a more complex genome with eight breakpoints and multiple inserted fragments. Subregion phylogenetic analysis further confirmed the parental origins of the recombinant segments. These findings reflect ongoing recombination driven by sustained cocirculation of CRF01_AE and CRF07_BC in Shenzhen and highlight the importance of continued molecular surveillance.