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1.
J Acquir Immune Defic Syndr ; 74(1): 112-116, 2017 Jan 01.
Artículo en Inglés | MEDLINE | ID: mdl-27532476

RESUMEN

HIV Prevention Trials Network 052 demonstrated that antiretroviral therapy (ART) prevents HIV transmission in serodiscordant couples. HIV from index-partner pairs was analyzed to determine the genetic linkage status of partner infections. Forty-six infections were classified as linked, indicating that the index was the likely source of the partner's infection. Lack of viral suppression and higher index viral load were associated with linked infection. Eight linked infections were diagnosed after the index started ART: 4 near the time of ART initiation and 4 after ART failure. Linked infections were not observed when the index participant was stably suppressed on ART.


Asunto(s)
Fármacos Anti-VIH/administración & dosificación , Quimioprevención/métodos , Transmisión de Enfermedad Infecciosa/prevención & control , Infecciones por VIH/prevención & control , Estudios de Cohortes , Femenino , Humanos , Masculino , Resultado del Tratamiento
2.
J Virol ; 89(22): 11294-311, 2015 Nov.
Artículo en Inglés | MEDLINE | ID: mdl-26339058

RESUMEN

UNLABELLED: HIV-1 is typically CCR5 using (R5) and T cell tropic (T-tropic), targeting memory CD4(+) T cells throughout acute and chronic infections. However, viruses can expand into alternative cells types. Macrophage-tropic (M-tropic) HIV-1 variants have evolved to infect macrophages, which have only low levels of surface CD4. Most M-tropic variants have been isolated from the central nervous system during late-stage chronic infection. We used the HIV-1 env genes of well-defined, subject-matched M-tropic and T-tropic viruses to characterize the phenotypic features of the M-tropic Env protein. We found that, compared to T-tropic viruses, M-tropic viruses infect monocyte-derived macrophages (MDMs) on average 28-fold more efficiently, use low-density CD4 more efficiently, have increased sensitivity to soluble CD4 (sCD4), and show trends toward sensitivity to some CD4 binding site antibodies but no difference in sensitivity to antibodies targeting the CD4-bound conformation. M-tropic viruses also displayed a trend toward resistance to neutralization by monoclonal antibodies targeting the V1/V2 region of Env, suggesting subtle changes in Env protein conformation. The paired M- and T-tropic viruses did not differ in autologous serum neutralization, temperature sensitivity, entry kinetics, intrinsic infectivity, or Env protein incorporation. We also examined viruses with modestly increased CD4 usage. These variants have significant sensitivity to sCD4 and may represent evolutionary intermediates. CD4 usage is strongly correlated with infectivity of MDMs over a wide range of CD4 entry phenotypes. These data suggest that emergence of M-tropic HIV-1 includes multiple steps in which a phenotype of increased sensitivity to sCD4 and enhanced CD4 usage accompany subtle changes in Env conformation. IMPORTANCE: HIV-1 typically replicates in CD4(+) T cells. However, HIV-1 can evolve to infect macrophages, especially within the brain. Understanding how CCR5-using macrophage-tropic viruses evolve and differ from CCR5-using T cell-tropic viruses may provide insights into viral evolution and pathogenesis within the central nervous system. We characterized the HIV-1 env viral entry gene from subject-matched macrophage-tropic and T cell-tropic viruses to identify entry features of macrophage-tropic viruses. We observed several differences between T cell-tropic and macrophage-tropic Env proteins, including functional differences with host CD4 receptor engagement and possible changes in the CD4 binding site and V1/V2 region. We also identified viruses with phenotypes between that of "true" macrophage-tropic and T cell-tropic viruses, which may represent evolutionary intermediates in a multistep process to macrophage tropism.


Asunto(s)
Antígenos CD4/metabolismo , Proteínas gp160 de Envoltorio del VIH/inmunología , Proteína gp41 de Envoltorio del VIH/inmunología , Infecciones por VIH/inmunología , VIH-1/fisiología , Tropismo Viral/fisiología , Anticuerpos Monoclonales/inmunología , Anticuerpos Neutralizantes/inmunología , Anticuerpos Antivirales/inmunología , Linfocitos T CD4-Positivos/virología , Línea Celular Tumoral , Células HEK293 , Proteína gp120 de Envoltorio del VIH/inmunología , Proteínas gp160 de Envoltorio del VIH/metabolismo , Proteína gp41 de Envoltorio del VIH/metabolismo , Humanos , Macrófagos/virología , Receptores CCR5/metabolismo , Proteínas Recombinantes/metabolismo , Internalización del Virus
3.
J Virol ; 89(20): 10688-92, 2015 Oct.
Artículo en Inglés | MEDLINE | ID: mdl-26223642

RESUMEN

The entry tropism of HIV-1 Env proteins from virus isolated from the blood and genital tract of five men with compartmentalized lineages was determined. The Env proteins isolated from the genital tract of subject C018 were macrophage-tropic proteins, while the remaining cloned env genes encoded R5 T cell-tropic proteins. The detection of a macrophage-tropic lineage of HIV-1 within the male genital tract strongly suggests that evolution of macrophage-tropic viruses can occur in anatomically isolated sites outside the central nervous system.


Asunto(s)
Linfocitos T CD4-Positivos/virología , Genitales Masculinos/virología , VIH-1/genética , Macrófagos/virología , Tropismo Viral/genética , Productos del Gen env del Virus de la Inmunodeficiencia Humana/genética , Expresión Génica , Genotipo , Infecciones por VIH/virología , VIH-1/clasificación , VIH-1/metabolismo , Humanos , Masculino , Tipificación Molecular , Filogenia , Semen/virología , Carga Viral , Productos del Gen env del Virus de la Inmunodeficiencia Humana/metabolismo
4.
PLoS One ; 10(6): e0127950, 2015.
Artículo en Inglés | MEDLINE | ID: mdl-26042804

RESUMEN

OBJECTIVE: HIV transmission is influenced by status awareness and receipt of care and treatment. We analyzed these attributes of named partners of persons with acute HIV infection (index AHI cases) to characterize the transmission landscape in North Carolina (NC). DESIGN: Secondary analysis of programmatic data. METHODS: We used data from the NC Screening and Tracing of Active Transmission Program (2002-2013) to determine HIV status (uninfected, AHI, or chronic HIV infection [CHI]), diagnosis status (new or previously-diagnosed), and care and treatment status (not in care, in care and not on treatment, in care and on treatment) of index AHI cases' named partners. We developed an algorithm identifying the most likely transmission source among known HIV-infected partners to estimate the proportion of transmissions arising from contact with persons at different HIV continuum stages. We conducted a complementary analysis among a subset of index AHI cases and partners with phylogenetically-linked viruses. RESULTS: Overall, 358 index AHI cases named 932 partners, of which 218 were found to be HIV-infected (162 (74.3%) previously-diagnosed, 11 (5.0%) new AHI, 45 (20.6%) new CHI). Most transmission events appeared attributable to previously-diagnosed partners (77.4%, 95% confidence interval 69.4-85.3%). Among these previously-diagnosed partners, 23.2% (14.0-32.3%) were reported as in care and on treatment near the index AHI case diagnosis date. In the subset study of 33 phylogenetically-linked cases and partners, 60.6% of partners were previously diagnosed (43.9-77.3%). CONCLUSIONS: A substantial proportion of HIV transmission in this setting appears attributable to contact with previously-diagnosed partners, reinforcing the need for improved engagement in care after diagnosis.


Asunto(s)
Continuidad de la Atención al Paciente , Infecciones por VIH/transmisión , Enfermedad Aguda , Demografía , Infecciones por VIH/diagnóstico , Infecciones por VIH/virología , Humanos , North Carolina , Parejas Sexuales , Carga Viral
5.
PLoS One ; 8(12): e82380, 2013.
Artículo en Inglés | MEDLINE | ID: mdl-24312658

RESUMEN

BACKGROUND: There is a well-acknowledged need for an effective AIDS vaccine that protects against HIV-1 infection or limits in vivo viral replication. The objective of these studies is to develop a replication-competent, vaccine vector based on the adenovirus serotype 4 (Ad4) virus expressing HIV-1 envelope (Env) 1086 clade C glycoprotein. Ad4 recombinant vectors expressing Env gp160 (Ad4Env160), Env gp140 (Ad4Env140), and Env gp120 (Ad4Env120) were evaluated. METHODS: The recombinant Ad4 vectors were generated with a full deletion of the E3 region of Ad4 to accommodate the env gene sequences. The vaccine candidates were assessed in vitro following infection of A549 cells for Env-specific protein expression and for posttranslational transport to the cell surface as monitored by the binding of broadly neutralizing antibodies (bNAbs). The capacity of the Ad4Env vaccines to induce humoral immunity was evaluated in rabbits for Env gp140 and V1V2-specific binding antibodies, and HIV-1 pseudovirus neutralization. Mice immunized with the Ad4Env160 vaccine were assessed for IFNγ T cell responses specific for overlapping Env peptide sets. RESULTS: Robust Env protein expression was confirmed by western blot analysis and recognition of cell surface Env gp160 by multiple bNAbs. Ad4Env vaccines induced humoral immune responses in rabbits that recognized Env 1086 gp140 and V1V2 polypeptide sequences derived from 1086 clade C, A244 clade AE, and gp70 V1V2 CASE A2 clade B fusion protein. The immune sera efficiently neutralized tier 1 clade C pseudovirus MW965.26 and neutralized the homologous and heterologous tier 2 pseudoviruses to a lesser extent. Env-specific T cell responses were also induced in mice following Ad4Env160 vector immunization. CONCLUSIONS: The Ad4Env vaccine vectors express high levels of Env glycoprotein and induce both Env-specific humoral and cellular immunity thus supporting further development of this new Ad4 HIV-1 Env vaccine platform in Phase 1 clinical trials.


Asunto(s)
Vacunas contra el SIDA/inmunología , Adenoviridae/genética , VIH-1/inmunología , Productos del Gen env del Virus de la Inmunodeficiencia Humana/genética , Animales , Línea Celular , Femenino , Humanos , Masculino , Ratones , Mutagénesis Sitio-Dirigida , Conejos
6.
PLoS Pathog ; 9(11): e1003776, 2013.
Artículo en Inglés | MEDLINE | ID: mdl-24278022

RESUMEN

The mechanisms by which human immunodeficiency virus type 1 (HIV-1) crosses mucosal surfaces to establish infection are unknown. Acidic genital secretions of HIV-1-infected women contain HIV-1 likely coated by antibody. We found that the combination of acidic pH and Env-specific IgG, including that from cervicovaginal and seminal fluids of HIV-1-infected individuals, augmented transcytosis across epithelial cells as much as 20-fold compared with Env-specific IgG at neutral pH or non-specific IgG at either pH. Enhanced transcytosis was observed with clinical HIV-1 isolates, including transmitted/founder strains, and was eliminated in Fc neonatal receptor (FcRn)-knockdown epithelial cells. Non-neutralizing antibodies allowed similar or less transcytosis than neutralizing antibodies. However, the ratio of total:infectious virus was higher for neutralizing antibodies, indicating that they allowed transcytosis while blocking infectivity of transcytosed virus. Immunocytochemistry revealed abundant FcRn expression in columnar epithelia lining the human endocervix and penile urethra. Acidity and Env-specific IgG enhance transcytosis of virus across epithelial cells via FcRn and could facilitate translocation of virus to susceptible target cells following sexual exposure.


Asunto(s)
Células Epiteliales/inmunología , Anticuerpos Anti-VIH/inmunología , VIH-1/inmunología , Antígenos de Histocompatibilidad Clase I/inmunología , Inmunoglobulina G/inmunología , Receptores Fc/inmunología , Transcitosis/inmunología , Línea Celular Tumoral , Cuello del Útero/inmunología , Cuello del Útero/patología , Cuello del Útero/virología , Células Epiteliales/patología , Femenino , VIH-1/patogenicidad , Humanos , Concentración de Iones de Hidrógeno , Masculino , Semen/inmunología , Uretra/inmunología , Uretra/patología , Uretra/virología
7.
PLoS One ; 8(9): e71557, 2013.
Artículo en Inglés | MEDLINE | ID: mdl-24086252

RESUMEN

In the HPTN 052 study, transmission between HIV-discordant couples was reduced by 96% when the HIV-infected partner received suppressive antiretroviral therapy (ART). We examined two transmission events where the newly infected partner was diagnosed after the HIV-infected partner (index) initiated therapy. We evaluated the sequence complexity of the viral populations and antibody reactivity in the newly infected partner to estimate the dates of transmission to the newly infected partners. In both cases, transmission most likely occurred significantly before HIV-1 diagnosis of the newly infected partner, and either just before the initiation of therapy or before viral replication was adequately suppressed by therapy of the index. This study further strengthens the conclusion about the efficacy of blocking transmission by treating the infected partner of discordant couples. However, this study does not rule out the potential for HIV-1 transmission to occur shortly after initiation of ART, and this should be recognized when antiretroviral therapy is used for HIV-1 prevention.


Asunto(s)
Fármacos Anti-VIH/uso terapéutico , Infecciones por VIH/transmisión , Infecciones por VIH/tratamiento farmacológico , Infecciones por VIH/prevención & control , VIH-1 , Humanos
8.
J Virol ; 87(13): 7218-33, 2013 Jul.
Artículo en Inglés | MEDLINE | ID: mdl-23616655

RESUMEN

Understanding human immunodeficiency virus type 1 (HIV-1) transmission is central to developing effective prevention strategies, including a vaccine. We compared phenotypic and genetic variation in HIV-1 env genes from subjects in acute/early infection and subjects with chronic infections in the context of subtype C heterosexual transmission. We found that the transmitted viruses all used CCR5 and required high levels of CD4 to infect target cells, suggesting selection for replication in T cells and not macrophages after transmission. In addition, the transmitted viruses were more likely to use a maraviroc-sensitive conformation of CCR5, perhaps identifying a feature of the target T cell. We confirmed an earlier observation that the transmitted viruses were, on average, modestly underglycosylated relative to the viruses from chronically infected subjects. This difference was most pronounced in comparing the viruses in acutely infected men to those in chronically infected women. These features of the transmitted virus point to selective pressures during the transmission event. We did not observe a consistent difference either in heterologous neutralization sensitivity or in sensitivity to soluble CD4 between the two groups, suggesting similar conformations between viruses from acute and chronic infection. However, the presence or absence of glycosylation sites had differential effects on neutralization sensitivity for different antibodies. We suggest that the occasional absence of glycosylation sites encoded in the conserved regions of env, further reduced in transmitted viruses, could expose specific surface structures on the protein as antibody targets.


Asunto(s)
Variación Genética , Infecciones por VIH/metabolismo , VIH-1/metabolismo , Receptores CCR5/metabolismo , Linfocitos T/virología , Proteínas del Envoltorio Viral/metabolismo , Secuencia de Bases , Clonación Molecular , Análisis por Conglomerados , Estudios de Cohortes , Femenino , Glicosilación , Infecciones por VIH/prevención & control , Infecciones por VIH/transmisión , Humanos , Malaui , Masculino , Datos de Secuencia Molecular , Pruebas de Neutralización , Filogenia , Conformación Proteica , Receptores CCR5/química , Alineación de Secuencia , Análisis de Secuencia de ADN , Factores Sexuales , Sudáfrica , Linfocitos T/inmunología , Proteínas del Envoltorio Viral/genética , Replicación Viral/fisiología
9.
J Clin Invest ; 123(1): 380-93, 2013 Jan.
Artículo en Inglés | MEDLINE | ID: mdl-23221345

RESUMEN

HIV-1 accumulates mutations in and around reactive epitopes to escape recognition and killing by CD8+ T cells. Measurements of HIV-1 time to escape should therefore provide information on which parameters are most important for T cell-mediated in vivo control of HIV-1. Primary HIV-1-specific T cell responses were fully mapped in 17 individuals, and the time to virus escape, which ranged from days to years, was measured for each epitope. While higher magnitude of an individual T cell response was associated with more rapid escape, the most significant T cell measure was its relative immunodominance measured in acute infection. This identified subject-level or "vertical" immunodominance as the primary determinant of in vivo CD8+ T cell pressure in HIV-1 infection. Conversely, escape was slowed significantly by lower population variability, or entropy, of the epitope targeted. Immunodominance and epitope entropy combined to explain half of all the variability in time to escape. These data explain how CD8+ T cells can exert significant and sustained HIV-1 pressure even when escape is very slow and that within an individual, the impacts of other T cell factors on HIV-1 escape should be considered in the context of immunodominance.


Asunto(s)
Linfocitos T CD8-positivos/inmunología , Epítopos de Linfocito T/inmunología , Infecciones por VIH/inmunología , VIH-1/inmunología , Evasión Inmune , Inmunidad Celular , Adolescente , Adulto , Linfocitos T CD8-positivos/patología , Femenino , Infecciones por VIH/patología , Humanos , Masculino
10.
PLoS Pathog ; 7(9): e1002209, 2011 Sep.
Artículo en Inglés | MEDLINE | ID: mdl-21980282

RESUMEN

Here we have identified HIV-1 B clade Envelope (Env) amino acid signatures from early in infection that may be favored at transmission, as well as patterns of recurrent mutation in chronic infection that may reflect common pathways of immune evasion. To accomplish this, we compared thousands of sequences derived by single genome amplification from several hundred individuals that were sampled either early in infection or were chronically infected. Samples were divided at the outset into hypothesis-forming and validation sets, and we used phylogenetically corrected statistical strategies to identify signatures, systematically scanning all of Env. Signatures included single amino acids, glycosylation motifs, and multi-site patterns based on functional or structural groupings of amino acids. We identified signatures near the CCR5 co-receptor-binding region, near the CD4 binding site, and in the signal peptide and cytoplasmic domain, which may influence Env expression and processing. Two signatures patterns associated with transmission were particularly interesting. The first was the most statistically robust signature, located in position 12 in the signal peptide. The second was the loss of an N-linked glycosylation site at positions 413-415; the presence of this site has been recently found to be associated with escape from potent and broad neutralizing antibodies, consistent with enabling a common pathway for immune escape during chronic infection. Its recurrent loss in early infection suggests it may impact fitness at the time of transmission or during early viral expansion. The signature patterns we identified implicate Env expression levels in selection at viral transmission or in early expansion, and suggest that immune evasion patterns that recur in many individuals during chronic infection when antibodies are present can be selected against when the infection is being established prior to the adaptive immune response.


Asunto(s)
Infecciones por VIH/genética , VIH-1/genética , Mutación Missense , Señales de Clasificación de Proteína/genética , Productos del Gen env del Virus de la Inmunodeficiencia Humana/genética , Inmunidad Adaptativa , Secuencias de Aminoácidos , Sustitución de Aminoácidos , Anticuerpos Antivirales/inmunología , Sitios de Unión/genética , Antígenos CD4/genética , Antígenos CD4/inmunología , Enfermedad Crónica , Regulación Viral de la Expresión Génica/fisiología , Glicosilación , Infecciones por VIH/inmunología , VIH-1/inmunología , VIH-1/patogenicidad , Receptores CCR5/genética , Receptores CCR5/inmunología , Estudios Retrospectivos , Productos del Gen env del Virus de la Inmunodeficiencia Humana/biosíntesis
11.
J Virol ; 85(16): 8270-84, 2011 Aug.
Artículo en Inglés | MEDLINE | ID: mdl-21653661

RESUMEN

The analysis of HIV-1 envelope carbohydrates is critical to understanding their roles in HIV-1 transmission as well as in binding of envelope to HIV-1 antibodies. However, direct analysis of protein glycosylation by glycopeptide-based mass mapping approaches involves structural simplification of proteins with the use of a protease followed by an isolation and/or enrichment step before mass analysis. The successful completion of glycosylation analysis is still a major analytical challenge due to the complexity of samples, wide dynamic range of glycopeptide concentrations, and glycosylation heterogeneity. Here, we use a novel experimental workflow that includes an up-front complete or partial enzymatic deglycosylation step before trypsin digestion to characterize the glycosylation patterns and maximize the glycosylation coverage of two recombinant HIV-1 transmitted/founder envelope oligomers derived from clade B and C viruses isolated from acute infection and expressed in 293T cells. Our results show that both transmitted/founder Envs had similar degrees of glycosylation site occupancy as well as similar glycan profiles. Compared to 293T-derived recombinant Envs from viruses isolated from chronic HIV-1, transmitted/founder Envs displayed marked differences in their glycosylation site occupancies and in their amounts of complex glycans. Our analysis reveals that the glycosylation patterns of transmitted/founder Envs from two different clades (B and C) are more similar to each other than they are to the glycosylation patterns of chronic HIV-1 Envs derived from their own clades.


Asunto(s)
VIH-1/química , Espectrometría de Masas/métodos , Productos del Gen env del Virus de la Inmunodeficiencia Humana/química , Secuencia de Aminoácidos , Glicósido Hidrolasas/metabolismo , Glicosilación , Células HEK293 , Infecciones por VIH/transmisión , Infecciones por VIH/virología , VIH-1/inmunología , Humanos , Alineación de Secuencia , Tripsina
12.
PLoS Pathog ; 6(8): e1001053, 2010 Aug 19.
Artículo en Inglés | MEDLINE | ID: mdl-20808902

RESUMEN

HIV-1 is present in anatomical compartments and bodily fluids. Most transmissions occur through sexual acts, making virus in semen the proximal source in male donors. We find three distinct relationships in comparing viral RNA populations between blood and semen in men with chronic HIV-1 infection, and we propose that the viral populations in semen arise by multiple mechanisms including: direct import of virus, oligoclonal amplification within the seminal tract, or compartmentalization. In addition, we find significant enrichment of six out of nineteen cytokines and chemokines in semen of both HIV-infected and uninfected men, and another seven further enriched in infected individuals. The enrichment of cytokines involved in innate immunity in the seminal tract, complemented with chemokines in infected men, creates an environment conducive to T cell activation and viral replication. These studies define different relationships between virus in blood and semen that can significantly alter the composition of the viral population at the source that is most proximal to the transmitted virus.


Asunto(s)
Infecciones por VIH/virología , VIH-1/genética , Semen/virología , Citocinas/biosíntesis , Citocinas/inmunología , Genes env/genética , Infecciones por VIH/transmisión , VIH-1/inmunología , Humanos , Masculino , Filogenia , ARN Viral/análisis , ARN Viral/genética
13.
Virology ; 397(2): 346-57, 2010 Feb 20.
Artículo en Inglés | MEDLINE | ID: mdl-20003995

RESUMEN

Functional studies of HIV-1 envelope glycoproteins (Envs) commonly include the generation of pseudoviruses, which are produced by co-transfection of rev-vpu-env cassettes with an env-deficient provirus. Here, we describe six Env constructs from transmitted/founder HIV-1 that were defective in the pseudotyping assay, although two produced infectious virions when expressed from their cognate proviruses. All of these constructs exhibited an unusual gene arrangement in which the first exon of rev (rev1) and vpu were in the same reading frame without an intervening stop codon. Disruption of the rev1-vpu fusion gene by frameshift mutation, stop codon, or abrogation of the rev initiation codon restored pseudovirion infectivity. Introduction of the fusion gene into wildtype Env cassettes severely compromised their function. The defect was not due to altered env and rev transcription or a dominant negative effect of the expressed fusion protein, but seemed to be caused by inefficient translation at the env initiation codon. Although the rev1-vpu polymorphism affects Env expression only in vitro, it can cause problems in studies requiring Env complementation, such as analyses of co-receptor usage and neutralization properties, since 3% of subtype A, 20% of subtype C and 5% of CRF01_A/E viruses encode the fusion gene. A solution is to eliminate the rev initiation codon when amplifying rev-vpu-env cassettes since this increases Env expression irrespective of the presence of the polymorphism.


Asunto(s)
VIH-1/genética , VIH-1/patogenicidad , Proteínas del Virus de la Inmunodeficiencia Humana/genética , Polimorfismo Genético , Proteínas Reguladoras y Accesorias Virales/genética , Productos del Gen env del Virus de la Inmunodeficiencia Humana/biosíntesis , Productos del Gen rev del Virus de la Inmunodeficiencia Humana/genética , Secuencia de Aminoácidos , Secuencia de Bases , Línea Celular , Proteínas del Virus de la Inmunodeficiencia Humana/metabolismo , Humanos , Datos de Secuencia Molecular , Biosíntesis de Proteínas , Proteínas Recombinantes de Fusión/genética , Proteínas Recombinantes de Fusión/metabolismo , Proteínas Reguladoras y Accesorias Virales/metabolismo , Productos del Gen rev del Virus de la Inmunodeficiencia Humana/metabolismo
14.
Proc Natl Acad Sci U S A ; 105(21): 7552-7, 2008 May 27.
Artículo en Inglés | MEDLINE | ID: mdl-18490657

RESUMEN

The precise identification of the HIV-1 envelope glycoprotein (Env) responsible for productive clinical infection could be instrumental in elucidating the molecular basis of HIV-1 transmission and in designing effective vaccines. Here, we developed a mathematical model of random viral evolution and, together with phylogenetic tree construction, used it to analyze 3,449 complete env sequences derived by single genome amplification from 102 subjects with acute HIV-1 (clade B) infection. Viral env genes evolving from individual transmitted or founder viruses generally exhibited a Poisson distribution of mutations and star-like phylogeny, which coalesced to an inferred consensus sequence at or near the estimated time of virus transmission. Overall, 78 of 102 subjects had evidence of productive clinical infection by a single virus, and 24 others had evidence of productive clinical infection by a minimum of two to five viruses. Phenotypic analysis of transmitted or early founder Envs revealed a consistent pattern of CCR5 dependence, masking of coreceptor binding regions, and equivalent or modestly enhanced resistance to the fusion inhibitor T1249 and broadly neutralizing antibodies compared with Envs from chronically infected subjects. Low multiplicity infection and limited viral evolution preceding peak viremia suggest a finite window of potential vulnerability of HIV-1 to vaccine-elicited immune responses, although phenotypic properties of transmitted Envs pose a formidable defense.


Asunto(s)
Transmisión de Enfermedad Infecciosa , Evolución Molecular , Infecciones por VIH/transmisión , Infecciones por VIH/virología , VIH-1/genética , Productos del Gen env del Virus de la Inmunodeficiencia Humana/genética , Vacunas contra el SIDA/inmunología , Secuencia de Bases , Variación Genética , Anticuerpos Anti-VIH/inmunología , Infecciones por VIH/inmunología , VIH-1/aislamiento & purificación , VIH-1/fisiología , Humanos , Modelos Biológicos , Datos de Secuencia Molecular , Mutación , Filogenia , ARN Viral/sangre , ARN Viral/genética , Receptores CCR5/metabolismo , Análisis de Secuencia de ARN , Productos del Gen env del Virus de la Inmunodeficiencia Humana/inmunología
15.
AIDS Res Hum Retroviruses ; 23(3): 347-56, 2007 Mar.
Artículo en Inglés | MEDLINE | ID: mdl-17411367

RESUMEN

Sequence analysis can be used to evaluate transmission networks. We have used retrospective samples to examine two HIV-1 transmission networks established by contact tracing. Regions of the HIV-1 region representing segments of gag and env were amplified by RT-PCR from frozen plasma samples and the sequence of each PCR product was determined. Within one of the networks (composed of 38 subjects) we found only a subset of the tested sequence clusters was consistent with the reported epidemiological linkage. Of 15 presumed transmission events where sequence data were available, 9 could be rejected either by subtype mismatch or by phylogenetic tests. In the other network (composed of 89 subjects) we were able to assess sequences for 26 presumed transmission events, 18 of which were rejected based on subtype discordance. Long lags in time between the time of transmission and the time of sequence sampling (ranging from 2 to 18 years) may limit the sensitivity for the detection of sequence linkage. Also, superinfection and incomplete epidemiological information are other factors that will limit the concordance of phylogenetic reconstruction and reported epidemiological linkage.


Asunto(s)
Trazado de Contacto/métodos , Transmisión de Enfermedad Infecciosa , Infecciones por VIH/transmisión , VIH-1/genética , Filogenia , ARN Viral/clasificación , Análisis por Conglomerados , Cuba/epidemiología , Evolución Molecular , Genes env/genética , Genes gag/genética , Infecciones por VIH/epidemiología , Humanos , Epidemiología Molecular , Datos de Secuencia Molecular , Estudios Retrospectivos
16.
Virology ; 356(1-2): 95-105, 2006.
Artículo en Inglés | MEDLINE | ID: mdl-16942785

RESUMEN

CXCR4 coreceptor usage appears to occur less frequently among HIV-1 subtype C viruses. The aim of this study was to investigate the genetic determinants within the V3 region of subtype C isolates able to use CXCR4. Thirty-two subtype C isolates with known phenotypes (16 R5, 8 R5X4 and 8 X4 isolates) were assessed. A subtype C-specific V3 heteroduplex tracking assay (HTA) was used to determine sample complexity, and nucleotide sequencing analysis was used to compare characteristics associated with CCR5 and CXCR4-using isolates. There were sufficient genetic differences to discriminate between R5 viruses and those able to use CXCR4. In general, R5 isolates had an HTA mobility ratio >0.9 whereas CXCR4-using isolates were usually <0.9. Multiple bands were more frequently seen among the dualtropic isolates. Sequence analysis of the V3 region showed that CXCR4-using viruses were often associated with an increased positive amino acid charge, insertions and loss of a glycosylation site, similar to HIV-1 subtype B. In contrast, where subtype B consensus V3 has a GPGR crown motif irrespective of coreceptor usage, all 16 subtype C R5 viruses had a conserved GPGQ sequence at the tip of the loop, while 12 of the 16 (75%) CXCR4-using viruses had substitutions in this motif, most commonly arginine (R). These findings were confirmed using a larger published data set. We therefore suggest that changes within the crown motif of subtype C viruses might be an additional pathway to utilise CXCR4 and thus GPGQ may limit the potential for the development of X4 viruses.


Asunto(s)
Proteína gp120 de Envoltorio del VIH/genética , VIH-1/clasificación , VIH-1/metabolismo , Análisis Heterodúplex/métodos , Fragmentos de Péptidos/genética , Receptores CXCR4/metabolismo , Secuencia de Aminoácidos , Proteína gp120 de Envoltorio del VIH/química , VIH-1/genética , VIH-1/aislamiento & purificación , Humanos , Datos de Secuencia Molecular , Fragmentos de Péptidos/química , Receptores CCR5/metabolismo , Análisis de Secuencia de ADN
17.
Virology ; 330(1): 295-303, 2004 Dec 05.
Artículo en Inglés | MEDLINE | ID: mdl-15527854

RESUMEN

Mother-to-child transmission (MTCT) of human immunodeficiency virus type 1 (HIV-1) through breast milk is a significant mechanism of infection in many regions of the world. We compared the HIV-1 populations in paired blood and breast milk samples using a heteroduplex tracking assay (HTA) for the V1/V2 regions of env (V1/V2-HTA). V1/V2-HTA patterns were similar in the eight pairs of samples for which adequate template sampling could be demonstrated. No unique variants existed in either compartment, and differences detected in the relative abundance of variants between compartments were small, occurred among low abundance variants, and were not statistically significant. We also documented the impact of template sampling as a limiting feature in comparing two viral populations. The absence of unique variants and the lack of significant differences in the relative abundance of variants between these compartments support the conclusion that viruses in the blood plasma and breast milk are well equilibrated.


Asunto(s)
VIH-1/aislamiento & purificación , Leche Humana/virología , Síndrome de Inmunodeficiencia Adquirida/transmisión , Femenino , Genes env , VIH-1/genética , Humanos , Transmisión Vertical de Enfermedad Infecciosa , ARN Viral/sangre , ARN Viral/aislamiento & purificación , Reacción en Cadena de la Polimerasa de Transcriptasa Inversa , Moldes Genéticos , Carga Viral
18.
Rev. cuba. med. trop ; 55(3): 213-216, sep.-dic. 2003.
Artículo en Español | LILACS | ID: lil-629324

RESUMEN

Se demostró la eficacia de la enzima transcriptasa inversa SensiScript para obtener material genético útil en la secuenciación de ácido nucleico de VIH-1, a partir de sueros colectados entre 1989 y 1998 y conservados a temperatura subóptima. Con el empleo de la enzima SensiScript se obtuvo amplificación del ARN del VIH-1 en 86,5 % de las muestras estudiadas, comparado con 20 % al utilizar la enzima AMV-RT. En 13,5 % de las muestras no se obtuvo amplificación con ninguna de las 2 enzimas empleadas.


The efficiency of SensiScript reverse transciptase to obtain useful genetic material in the sequencing of the nucleic acid from HIV-1, starting from sera collected between 1989 and 1998 and kept at suboptimal temperatures, was proved. On using the SensiScript enzyme it was obtained an amplification of the RNA of the HIV-1 in 86.5 % of the studied samples, compared with 20 % on using the AMV-RT enzyme . No amplification was obtained in 13.5 % of the studied samples with any of the 2 enzymes used.


Asunto(s)
Humanos , VIH-1 , Reacción en Cadena de la Polimerasa de Transcriptasa Inversa , ARN Viral/aislamiento & purificación , Sangre/virología , Criopreservación , Factores de Tiempo
19.
AIDS Res Hum Retroviruses ; 19(2): 133-44, 2003 Feb.
Artículo en Inglés | MEDLINE | ID: mdl-12639249

RESUMEN

HIV-1 genetic diversity among circulating strains presents a major challenge for HIV-1 vaccine development, particularly for developing countries where less sequence information is available. To identify representative viruses for inclusion in candidate vaccines targeted for South Africa, we applied an efficient sequence survey strategy to samples from recently and chronically infected persons residing in potential vaccine trial sites. All 111 sequences were subtype C, including 30 partial gag, 26 partial pol, 27 V2-V3 env, and 28 V5-partial gp41 sequences. Of the 10 viruses cultured from recently infected individuals, 9 were R5 and 1 was R5X4. Two isolates, Du151 and Du422, collected within 2 months of infection, were selected as vaccine strains on the basis of their amino acid similarity to a derived South African consensus sequence The selection of recently transmitted R5 isolates for vaccine design may provide an advantage in a subtype C R5-dominant epidemic. The full-length Du422 gag and Du151 pol and env genes were cloned into the Venezuelan equine encephalitis (VEE) replicon particle (VRP) expression system. Du422 Gag protein expressed from the VRP accumulated to a high level and was immunogenic as demonstrated by cytotoxic T lymphocyte responses in mice vaccinated with gag-VRPs. Optimization of codon use for VRP expression in human cells did not enhance expression of the gag gene. The cloned Du151 env gene encoded a functional protein as demonstrated by fusion of VRP-infected cells with cells expressing CD4 and CCR5. Genes identified in this study have been incorporated into the VEE VRP candidate vaccines targeted for clinical trial in South Africa.


Asunto(s)
Vacunas contra el SIDA , Infecciones por VIH/prevención & control , VIH-1/clasificación , VIH-1/aislamiento & purificación , Animales , Línea Celular , Chlorocebus aethiops , Ensayos Clínicos como Asunto , Virus de la Encefalitis Equina Venezolana/genética , Productos del Gen env/genética , Productos del Gen env/metabolismo , Productos del Gen gag/genética , Productos del Gen gag/metabolismo , Vectores Genéticos , VIH-1/genética , Humanos , Datos de Secuencia Molecular , Filogenia , Replicón/genética , Análisis de Secuencia de ADN , Sudáfrica , Células Vero , Virión/genética , Virión/metabolismo
20.
Rev Cubana Med Trop ; 55(3): 213-6, 2003.
Artículo en Español | MEDLINE | ID: mdl-15849930

RESUMEN

The efficiency of SensiScript reverse transciptase to obtain useful genetic material in the sequencing of the nucleic acid from HIV-1, starting from sera collected between 1989 and 1998 and kept at suboptimal temperatures, was proved. On using the SensiScript enzyme it was obtained an amplification of the RNA of the HIV-1 in 86.5 % of the studied samples, compared with 20 % on using the AMV-RT enzyme . No amplification was obtained in 13.5 % of the studied samples with any of the 2 enzymes used.


Asunto(s)
VIH-1/genética , ARN Viral/aislamiento & purificación , Reacción en Cadena de la Polimerasa de Transcriptasa Inversa , Sangre/virología , Criopreservación , Humanos , Factores de Tiempo
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