title: Development and characterization of a novel single-cycle recombinant-virus assay to determine human immunodeficiency virus type 1 coreceptor tropism.
abstract: Most human immunodeficiency virus type 1 (HIV-1) strains require either the CXCR4 or CCR5 chemokine receptor to efficiently enter cells. Blocking viral binding to these coreceptors is an attractive therapeutic target. Currently, several coreceptor antagonists are being evaluated in clinical trials that require characterization of coreceptor tropism for enrollment. In this report, we describe the development of an automated and accurate procedure for determining HIV-1 coreceptor tropism (Trofile) and its validation for routine laboratory testing. HIV-1 pseudoviruses are generated using full-length env genes derived from patient virus populations. Coreceptor tropism is determined by measuring the abilities of these pseudovirus populations to efficiently infect CD4+/U87 cells expressing either the CXCR4 or CCR5 coreceptor. Viruses exclusively and efficiently infecting CXCR4+/CD4+/U87 cells are designated X4-tropic. Conversely, viruses exclusively and efficiently infecting CCR5+/CD4+/U87 cells are designated R5-tropic. Viruses capable of infecting both CXCR4+/CD4+/U87 and CCR5+/CD4+/U87 cells are designated dual/mixed-tropic. Assay accuracy and reproducibility were established by evaluating the tropisms of well-characterized viruses and the variability among replicate results from samples tested repeatedly. The viral subtype, hepatitis B virus or hepatitis C virus coinfection, and the plasma viral load did not affect assay performance. Minority subpopulations with alternate tropisms were reliably detected when present at 5 to 10%. The plasma viral load above which samples can be amplified efficiently in the Trofile assay is 1,000 copies per ml of plasma. Trofile has been automated for high-throughput use; it can be used to identify patients most likely to benefit from treatment regimens that include a coreceptor inhibitor and to monitor patients on treatment for the emergence of resistant virus populations that switch coreceptor tropism.
authors.affiliation: Monogram Biosciences, Inc., 345 Oyster Point Boulevard, South San Francisco, CA 94080, USA.
authors.forename: Jeannette M
authors.initials: JM
authors.lastname: Whitcomb
authors.forename: Wei
authors.initials: W
authors.lastname: Huang
authors.forename: Signe
authors.initials: S
authors.lastname: Fransen
authors.forename: Kay
authors.initials: K
authors.lastname: Limoli
authors.forename: Jonathan
authors.initials: J
authors.lastname: Toma
authors.forename: Terri
authors.initials: T
authors.lastname: Wrin
authors.forename: Colombe
authors.initials: C
authors.lastname: Chappey
authors.forename: Linda D B
authors.initials: LD
authors.lastname: Kiss
authors.forename: Ellen E
authors.initials: EE
authors.lastname: Paxinos
authors.forename: Christos J
authors.initials: CJ
authors.lastname: Petropoulos
mesh_terms: D001681:Biological Assay; D002460:Cell Line; D015497:HIV-1 / Q000302:isolation & purification / Q000502:physiology*; D006801:Humans; D019713:Receptors, CCR5 / Q000032:analysis* / Q000502:physiology; D019718:Receptors, CXCR4 / Q000032:analysis* / Q000502:physiology; D011994:Recombinant Proteins / Q000032:analysis; D012680:Sensitivity and Specificity; D014162:Transfection; D014773:Virology / Q000379:methods; D014779:Virus Replication
chemical_list: D019713:Receptors, CCR5; D019718:Receptors, CXCR4; D011994:Recombinant Proteins