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1 National Retrovirus Reference Center, Department of Hygiene and Epidemiology, Athens University Medical School, Mikras Asias 75, 11527 Athens, Greece
2 Rega Institute for Medical Research, Katholieke Universiteit Leuven, Leuven, Belgium
Correspondence
A. Hatzakis
ahatzak{at}cc.uoa.gr
Recombination plays a pivotal role in the evolutionary process of many different virus species, including retroviruses. Analysis of all human immunodeficiency virus type 1 (HIV-1) intersubtype recombinants revealed that they are more complex than described initially. Recombination frequency is higher within certain genomic regions, such as partial reverse transcriptase (RT), vif/vpr, the first exons of tat/rev, vpu and gp41. A direct correlation was observed between recombination frequency and sequence similarity across the HIV-1 genome, indicating that sufficient sequence similarity is required upstream of the recombination breakpoint. This finding suggests that recombination in vivo may occur preferentially during reverse transcription through the strand displacement-assimilation model rather than the copy-choice model.
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