Short-sighted virus evolution and a germline hypothesis for chronic viral infections

KA Lythgoe, A Gardner, OG Pybus, J Grove - Trends in microbiology, 2017 - cell.com
With extremely short generation times and high mutability, many viruses can rapidly evolve
and adapt to changing environments. This ability is generally beneficial to viruses as it …

Mathematical models of HIV latency

AL Hill - HIV-1 latency, 2018 - Springer
Viral latency is a major barrier to curing HIV infection with antiretroviral therapy, and
consequently, for eliminating the disease globally. The establishment, maintenance, and …

The replication-competent HIV reservoir is a genetically restricted, younger subset of the overall pool of HIV proviruses persisting during therapy, which is highly …

A Shahid, S MacLennan, BR Jones… - Journal of …, 2024 - Am Soc Microbiol
Within-host HIV populations continually diversify during untreated infection, and this diversity
persists within infected cell reservoirs during antiretroviral therapy (ART). Achieving a better …

Relationship between latent and rebound viruses in a clinical trial of anti–HIV-1 antibody 3BNC117

YZ Cohen, JCC Lorenzi, L Krassnig… - Journal of Experimental …, 2018 - rupress.org
A clinical trial was performed to evaluate 3BNC117, a potent anti–HIV-1 antibody, in infected
individuals during suppressive antiretroviral therapy and subsequent analytical treatment …

Inference of transmission network structure from HIV phylogenetic trees

F Giardina, EO Romero-Severson, J Albert… - PLoS computational …, 2017 - journals.plos.org
Phylogenetic inference is an attractive means to reconstruct transmission histories and
epidemics. However, there is not a perfect correspondence between transmission history …

Evolution of HIV-1 within untreated individuals and at the population scale in Uganda

J Raghwani, AD Redd, AF Longosz, CH Wu… - PLoS …, 2018 - journals.plos.org
HIV-1 undergoes multiple rounds of error-prone replication between transmission events,
resulting in diverse viral populations within and among individuals. In addition, the virus …

Effect of the latent reservoir on the evolution of HIV at the within-and between-host levels

HM Doekes, C Fraser, KA Lythgoe - PLoS computational biology, 2017 - journals.plos.org
The existence of long-lived reservoirs of latently infected CD4+ T cells is the major barrier to
curing HIV, and has been extensively studied in this light. However, the effect of these …

Recombinant Forms of HIV-1 in the Last Decade of the Epidemic in the Russian Federation

A Antonova, E Kazennova, A Lebedev, E Ozhmegova… - Viruses, 2023 - mdpi.com
Currently, HIV-1 displays a substantial level of genetic diversity on a global scale, partly
attributed to its recombinant variants. This study seeks to identify and analyze HIV-1 …

In vitro replicative fitness of early Transmitted founder HIV-1 variants and sensitivity to Interferon alpha

M Ashokkumar, A Sonawane, M Sperk, SP Tripathy… - Scientific reports, 2020 - nature.com
Type I interferons, particularly interferon-alpha (IFN-α), play a vital role in the host's anti-viral
defenses by interfering with viral replication. However, the virus rapidly evolves to exploit the …

Migration coupled with recombination explains disparate HIV-1 anatomical compartmentalization signals

S Sarkar, E Romero-Severson, T Leitner - bioRxiv, 2023 - biorxiv.org
The evolution of HIV-1 in a host is shaped by many evolutionary forces, including
recombination of virus genomes and the potential isolation of viruses into different tissues …