Abstract:
:Genotype-based algorithms are valuable tools for the identification of patients eligible for CCR5 inhibitors administration in clinical practice. Among the available methods, geno2pheno[coreceptor] (G2P) is the most used online tool for tropism prediction. This study was conceived to assess if the combination of G2P prediction with V3 peptide net charge (NC) value could improve the accuracy of tropism prediction. A total of 172 V3 bulk sequences from 143 patients were analyzed by G2P and NC values. A phenotypic assay was performed by cloning the complete env gene and tropism determination was assessed on U87_CCR5(+)/CXCR4(+) cells. Sequences were stratified according to the agreement between NC values and G2P results. Of sequences predicted as X4 by G2P, 61% showed NC values higher than 5; similarly, 76% of sequences predicted as R5 by G2P had NC values below 4. Sequences with NC values between 4 and 5 were associated with different G2P predictions: 65% of samples were predicted as R5-tropic and 35% of sequences as X4-tropic. Sequences identified as X4 by NC value had at least one positive residue at positions known to be involved in tropism prediction and positive residues in position 32. These data supported the hypothesis that NC values between 4 and 5 could be associated with the presence of dual/mixed-tropic (DM) variants. The phenotypic assay performed on a subset of sequences confirmed the tropism prediction for concordant sequences and showed that NC values between 4 and 5 are associated with DM tropism. These results suggest that the combination of G2P and NC could increase the accuracy of tropism prediction. A more reliable identification of X4 variants would be useful for better selecting candidates for Maraviroc (MVC) administration, but also as a predictive marker in coreceptor switching, strongly associated with the phase of infection.
journal_name
AIDS Res Hum Retrovirusesjournal_title
AIDS research and human retrovirusesauthors
Montagna C,De Crignis E,Bon I,Re MC,Mezzaroma I,Turriziani O,Graziosi C,Antonelli Gdoi
10.1089/aid.2014.0006subject
Has Abstractpub_date
2014-12-01 00:00:00pages
1203-12issue
12eissn
0889-2229issn
1931-8405journal_volume
30pub_type
杂志文章abstract::Identifying and monitoring HIV clusters could be useful in tracking the leading edge of HIV transmission in epidemics. Currently, greater specificity in the definition of HIV clusters is needed to reduce confusion in the interpretation of HIV clustering results. We address sampling density as one of the key aspects of...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.2014.0173
更新日期:2014-12-01 00:00:00
abstract::The derivation of ethyl-methanesulfonate (EMS) mutagenized subclones from the CEM T-cell line has been described. These clones expressed CD4 and bound soluble gp120, however, two of the generated clones were markedly reduced in their ability to form syncytia after infection with either gp160-vaccinia vector or cell-fr...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.1992.8.1139
更新日期:1992-06-01 00:00:00
abstract::Although suppression of HIV-1 RNA below the limit of detection is associated with optimal outcomes, many patients can maintain or increase their CD4(+) count for prolonged time periods in the presence of persistent low-level viremia. We followed seven patients with prolonged (>5 years) discordant CD4(+)/viral load (VL...
journal_title:AIDS research and human retroviruses
pub_type: 临床试验,杂志文章
doi:10.1089/aid.2005.21.13
更新日期:2005-01-01 00:00:00
abstract::The presence of clinical manifestations of HIV-1 infection is one measure of immune function failure. We examined the occurrence of clinical manifestations of HIV-1 infection, in particular fever and oral thrush, before and after the initiation of highly active antiretroviral therapy (HAART). Using data collected from...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/08892220152596551
更新日期:2001-09-20 00:00:00
abstract::Enfuvirtide (ENF) is the first of a new class of antiretrovirals (ARVs) known as the HIV fusion inhibitors. Two phase III studies of ENF, TORO 1 and TORO 2, demonstrated that ENF given in combination with optimized background (OB) therapy significantly improved virological response, increased the time to virological f...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.2006.22.240
更新日期:2006-03-01 00:00:00
abstract::In a series of 60 HIV-1-infected individuals, serum electrofocusing analysis disclosed clonally restricted IgG patterns in 9 patients (15%), most with limited disease progression (stages WR1-WR3). These oligoclonal bands had a very heterogeneous light chain pattern, and most showed specificity for HIV-1 in affinity-dr...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.1990.6.581
更新日期:1990-05-01 00:00:00
abstract::In an attempt to develop an immunization strategy to induce mucosal and circulatory antibodies against SIV antigens, we have investigated the potential of attenuated recombinant vaccinia virus to deliver SIV antigens (gp160 of SIVmac239) to mucosal surfaces of mice. After systemic or mucosal (intragastric, intranasal,...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/088922299309982
更新日期:1999-11-01 00:00:00
abstract::HIV-1 group N (HIV-1/N) remains rare and mainly restricted to Cameroon. In this study, we report a new HIV-1/N infected case identified during routine HIV screening activities in Yaounde. The genetic characterization of the near full-length genome of this virus strain revealed that it is genetically distinct to all HI...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/AID.2018.0015
更新日期:2018-07-01 00:00:00
abstract::Simian species of Asian and African origin are naturally infected with the simian T cell leukemia virus type I (STLV-I). Like the closely related human T cell leukemia virus type I (HTLV-I), STLV-I is primarily cell associated, and typical infections exhibit low viral burdens. Four macaques experimentally inoculated w...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.1997.13.1147
更新日期:1997-09-01 00:00:00
abstract::Lymphoid tissues are the focus of critical events in HIV pathogenesis. Persistent and high levels of virus production, extensive trapping of virus particles in germinal centers, and progressive degenerative changes in lymph node architecture are characteristics of progressive HIV-1 infection. Infiltrates of granzyme B...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/088922299311330
更新日期:1999-03-01 00:00:00
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journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.1991.7.923
更新日期:1991-11-01 00:00:00
abstract::Combinations of drugs targeting viral proteins have been used to limit or control drug resistance, which is the most important cause of treatment failure in HIV-1-infected individuals. We suggest an alternative approach, namely to target cellular proteins, which are less prone to mutations than viral proteins. Here we...
journal_title:AIDS research and human retroviruses
pub_type: 临床试验,杂志文章,随机对照试验
doi:10.1089/aid.1997.13.1403
更新日期:1997-11-01 00:00:00
abstract::The main goal of this work was to identify molecular signatures in envelope surface glycoprotein that may be correlated with coreceptor usage by different human immunodeficiency virus (HIV)-2 strains. From inspection of aligned HIV-2 sequences, we verified that V1/V2 region showed the highest degree of amino acid sequ...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/AID.2017.0192
更新日期:2018-02-01 00:00:00
abstract::It is known that the HTLV-I-transformed cell line MT4 releases chemotactic activity for monocytes spontaneously. The MT4 monocyte chemoattractant was purified to homogeneity and sequencing of 25 amino acids revealed identity with the C-C chemokine macrophage inflammatory protein-1 alpha (MIP-1 alpha/LD78). An anti-MIP...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.1995.11.155
更新日期:1995-01-01 00:00:00
abstract::HIV infection is associated with a state of chronic, generalized immune activation that has been shown in many studies to be a key predictor of progression to AIDS. Consistent with this model, nonpathogenic SIV infections of natural hosts, such as the sooty mangabeys, are characterized by low levels of immune activati...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章,评审
doi:10.1089/aid.2010.0342
更新日期:2011-04-01 00:00:00
abstract::In HIV-infected persons, certain HLA class I alleles are associated with effective control of viremia, while others are associated with rapid disease progression. Among the most divergent clinical outcomes are the relatively good prognosis in HLA-B*5801 expressing persons and poor prognosis with HLA-B*5802. These two ...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.2007.0124
更新日期:2008-01-01 00:00:00
abstract::The combination of didanosine (ddI) and lamivudine (3TC) is attractive considering its low cost, potency, tolerability, and convenience (once daily administration), but it is not recommended as first-line therapy for HIV infection. A prospective, multicenter, open, comparative trial was conducted in HIV-infected, anti...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章,多中心研究
doi:10.1089/aid.2006.0029
更新日期:2007-10-01 00:00:00
abstract::Abstract We assessed the viral envelope (V3-V5 region) sequence diversity from 13 HIV-1-infected Indian children from north India. All of the 13 children were found to be infected with subtype C viruses. One of the viral sequences exhibited usage of the CXCR4 coreceptor predicted by Web PSSM and Geno2pheno tools. Th...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/AID.2011.0206
更新日期:2012-05-01 00:00:00
abstract::Human T cell leukemia virus protein induces T cells to permanent IL-2-dependent growth. These cells occasionally convert to factor independence. The viral oncoprotein Tax acts as an essential growth factor of transformed lymphocytes and stimulates the cell cycle in the G(1) phase. In T cells and fibroblasts Tax enhanc...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/08892220050193146
更新日期:2000-11-01 00:00:00
abstract::We report here the gene for DC-SIGN from Chinese rhesus macaques. DC-SIGN is a C-type lectin expressed by dendritic cells (DCs). It is involved in the interaction of DCs with T cells, and in transmission to T cells of HIV-1 and SIV. Alternative splicing in human DC-SIGN yields A and B isoforms of the protein. The over...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/088922202760265641
更新日期:2002-09-01 00:00:00
abstract::CD8+ lymphocytes (CD8 cells) have been shown to inhibit replication of the human immunodeficiency virus (HIV) in vitro when cocultured with HIV-infected CD4+ lymphocytes (CD4 cells). This suppressive effect on HIV replication in experimentally infected CD4 cells has so far been demonstrated only for CD8 cells from HIV...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.1997.13.79
更新日期:1997-01-01 00:00:00
abstract::Susceptibility to HIV infection was examined in macrophages differentiated from human monocytes by macrophage colony-stimulating factor (M-CSF) or granulocyte/macrophage colony-stimulating factor (GM-CSF). The replication of macrophage-tropic human immunodeficiency virus type-1 (HIV-1), which was determined by reverse...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.1995.11.1031
更新日期:1995-09-01 00:00:00
abstract::Sexual transmission of human immunodeficiency virus provides an efficient mode for virus spread and poses unique challenges to vaccine developers. Host and viral factors that affect transmission have been studied by epidemiological approaches in the human population, and some of these factors have been modeled with ex...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:
更新日期:1998-04-01 00:00:00
abstract::Subunit vaccines based on recombinant proteins have proved useful for inducing antibody responses and they are safe for widespread use because they do not contain any live components. Unfortunately, they do not typically induce the types of cell-mediated immune responses required to control viral pathogens; specifical...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.1994.10.853
更新日期:1994-07-01 00:00:00
abstract::Dendritic cells (DCs) are important mediators of the immune response against HIV and yet blood DC numbers fall substantially during HIV infection. Here we report that blood levels of the DC-tissue tropic chemokines monocyte chemotactic protein (MCP-1/CCL2), macrophage inflammatory proteins (MIP-3α/CCL20), and MIP-3β/C...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.2010.0261
更新日期:2011-06-01 00:00:00
abstract::Because mucosal inflammation contributes to colorectal carcinogenesis, we studied the impact of intestinal infections on risk of this malignancy among people with AIDS (PWA). Using the population-based HIV/AIDS Cancer Match, which includes approximately half of all PWA in the United States, the cancer registries ascer...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章,多中心研究
doi:10.1089/AID.2011.0185
更新日期:2012-09-01 00:00:00
abstract::We partially purified the human immunodeficiency virus (HIV) glycoprotein gp41 from infected H9 cells by immunoaffinity chromatography using a column containing the M25 monoclonal antibody (diMarzo-Veronese et al., 1985). A pH 11.5 buffer worked best for eluting the glycoprotein from this column. The eluted gp41 was u...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.1988.4.51
更新日期:1988-02-01 00:00:00
abstract::We report here a novel HIV-1 second-generation recombinant form (CRF01_AE/CRF07_BC) composed of CRF01_AE and CRF07_BC, identified among men who have sex with men (MSM) in Jilin, with four breakpoints observed in the pol, vif, and vpr genes. The CRF01_AE regions of the recombinant were clustered with the CRF01_AE linea...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.2013.0116
更新日期:2013-12-01 00:00:00
abstract::Cessation of highly active antiretroviral therapy (HAART) in HIV-infected individual leads to a rebound of viral replication due to reactivation of a viral reservoir composed largely of latently infected memory CD4(+) T cells. Efforts to deplete this reservoir have focused on reactivation of transcriptionally silent l...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/AID.2015.0347
更新日期:2016-02-01 00:00:00
abstract::EpiMatrix/HIV, a tool that is currently available on the World Wide Web, enables researchers to screen HIV proteins for potential MHC ligands. We have performed a comparison of EpiMatrix predictions to 158 published allotype-specific HLA-associated peptides (MHC ligands) derived from 133 proteins. The top 10 ranked Ep...
journal_title:AIDS research and human retroviruses
pub_type: 杂志文章
doi:10.1089/aid.1997.13.529
更新日期:1997-05-01 00:00:00