The dynamic change in HIV subtype distribution presents future challenges for diagnosis,
treatment and vaccine design and development. An increase in recombinant viruses …

The reduced costs of sequencing have led to whole-genome sequences for a large number
of microorganisms, enabling the application of microbial genome-wide association studies …

The human immunodeficiency virus type 1 (HIV-1) originated in non-human primates in
West-central Africa and continues to be a major global public health issue, having claimed …

For infectious diseases, a genetic cluster is a group of closely related infections that is
usually interpreted as representing a recent outbreak of transmission. Genetic clustering …

Abstract The International Committee for the Taxonomy and Nomenclature of Viruses does
not rule on virus classifications below the species level. The definition of species for viruses …

The primary obstacle to curing HIV-1 is a reservoir of CD4+ cells that contain stably
integrated provirus. Previous studies characterizing the proviral landscape, which have …

Phylogenetic analysis of pathogens is an increasingly powerful way to reduce the spread of
epidemics, including HIV. As a result, phylogenetic approaches are becoming embedded in …

Viral phylogenetic methods contribute to understanding how HIV spreads in populations,
and thereby help guide the design of prevention interventions. So far, most analyses have …

To prevent new infections with human immunodeficiency virus type 1 (HIV-1) in sub-
Saharan Africa, UNAIDS recommends targeting interventions to populations that are at high …

The growth of human immunodeficiency virus (HIV) sequence databases resulting from drug
resistance testing has motivated efforts using phylogenetic methods to assess how HIV …