Elevated HIV Viral Load is Associated with Higher Recombination Rate In Vivo.

ABSTRACT: HIV's exceptionally high recombination rate drives its intrahost diversification, enabling immune escape and multidrug resistance within people living with HIV. While we know that HIV's recombination rate varies by genomic position, we have little understanding of how recombination varies throughout infection or between individuals as a function of the rate of cellular coinfection. We hypothesize that denser intrahost populations may have higher rates of coinfection and therefore recombination. To test this hypothesis, we develop a new approach (recombination analysis via time series linkage decay or RATS-LD) to quantify recombination using autocorrelation of linkage between mutations across time points. We validate RATS-LD on simulated data under short read sequencing conditions and then

SUBMITTER: Romero EV 

PROVIDER: S-EPMC10777272 | biostudies-literature | 2024 Jan

REPOSITORIES: biostudies-literature