title: Genetic composition of replication competent clonal HIV-1 variants isolated from peripheral blood mononuclear cells (PBMC), HIV-1 proviral DNA from PBMC and HIV-1 RNA in serum in the course of HIV-1 infection.
abstract: The HIV-1 quasispecies in peripheral blood mononuclear cells (PBMC) is considered to be a mix of actively replicating, latent, and archived viruses and may be genetically distinct from HIV-1 variants in plasma that are considered to be recently produced. Here we analyzed the genetic relationship between gp160 env sequences from replication competent clonal HIV-1 variants that were isolated from PBMC and from contemporaneous HIV-1 RNA in serum and HIV-1 proviral DNA in PBMC of four longitudinally studied therapy naïve HIV-1 infected individuals. Replication competent clonal HIV-1 variants, HIV-1 RNA from serum, and HIV-1 proviral DNA from PBMC formed a single virus population at most time points analyzed. However, an under-representation in serum of HIV-1 sequences with predicted CXCR4 usage was sometimes observed implying that the analysis of viral sequences from different sources may provide a more complete assessment of the viral quasispecies in peripheral blood in vivo.
authors.affiliation: Department of Experimental Immunology, Sanquin Research, Landsteiner Laboratory, Department of Medical Microbiology, part of the Center for Infectious Diseases and Immunity Amsterdam (CINIMA) at the Academic Medical Center of the University of Amsterdam, Amsterdam, The Netherlands.
authors.forename: Diana
authors.initials: D
authors.lastname: Edo-Matas
authors.forename: Marit J
authors.initials: MJ
authors.lastname: van Gils
authors.forename: Emma J
authors.initials: EJ
authors.lastname: Bowles
authors.forename: Marjon
authors.initials: M
authors.lastname: Navis
authors.forename: Andrea
authors.initials: A
authors.lastname: Rachinger
authors.forename: Brigitte
authors.initials: B
authors.lastname: Boeser-Nunnink
authors.forename: Guillaume B
authors.initials: GB
authors.lastname: Stewart-Jones
authors.forename: Neeltje A
authors.initials: NA
authors.lastname: Kootstra
authors.forename: Angélique B
authors.initials: AB
authors.lastname: van 't Wout
authors.forename: Hanneke
authors.initials: H
authors.lastname: Schuitemaker
mesh_terms: D018791:CD4 Lymphocyte Count; D003001:Cloning, Molecular; D004279:DNA, Viral / Q000032:analysis / Q000235:genetics / Q000302:isolation & purification; D014644:Genetic Variation; D019302:HIV Envelope Protein gp160 / Q000737:chemistry / Q000235:genetics; D015658:HIV Infections / Q000821:virology; D015497:HIV-1 / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification / Q000502:physiology; D006801:Humans; D007963:Leukocytes, Mononuclear / Q000821:virology*; D011533:Proviruses / Q000235:genetics / Q000302:isolation & purification; D012367:RNA, Viral / Q000097:blood / Q000235:genetics; D019713:Receptors, CCR5 / Q000378:metabolism; D019718:Receptors, CXCR4 / Q000378:metabolism; D019562:Viral Load; D014779:Virus Replication
chemical_list: D004279:DNA, Viral; D019302:HIV Envelope Protein gp160; D012367:RNA, Viral; D019713:Receptors, CCR5; D019718:Receptors, CXCR4