HIV-1 replication in the central nervous system (CNS) is typically limited by the
availability of target cells. HIV-1 variants that are transmitted and dominate the early
stages of infection almost exclusively use the CCR5 coreceptor and are well adapted to
entering, and thus infecting, cells expressing high CD4 densities similar to those found
on CD4+ T cells. While the “immune privileged” CNS is largely devoid of CD4+
T cells, macrophage and microglia are abundant throughout the CNS. These cells likely
express CD4 densities that are too low to facilitate efficient entry or allow sustained
replication by most HIV-1 isolates. Examination of CNS viral populations reveals that late
in disease the CNS of some individuals contains HIV-1 lineages that have evolved the
ability to enter cells expressing low levels of CD4 and are well-adapted to entering
macrophages. These macrophage-tropic (M-tropic) viruses are able to maintain sustained
replication in the CNS for many generations, and their presence is associated with severe
neurocognitive impairment. Whether conditions such as pleocytosis are necessary for
macrophage-tropic viruses to emerge in the CNS is unknown, and extensive examinations of
macrophage-tropic variants have not revealed a genetic signature of this phenotype. It is
clear, however, that macrophage tropism is rare among HIV-1 isolates and is not
transmitted, but is important due to its pathogenic effects on hosts. Prior to the
evolution of macrophage-tropic variants, the viruses that are predominately infecting T
cells (R5 T cell-tropic) may infect macrophages at a low level and inefficiently, but this
could contribute to the reservoir.