Highly complex neutralization determinants on a monophyletic lineage of newly transmitted subtype C HIV-1 Env clones from India.

[1]  E. Sanders-Buell,et al.  Cross-clade neutralization patterns among HIV-1 strains from the six major clades of the pandemic evaluated and compared in two different models. , 2008, Virology.

[2]  Hui Li,et al.  Identification and characterization of transmitted and early founder virus envelopes in primary HIV-1 infection , 2008, Proceedings of the National Academy of Sciences.

[3]  R. Paranjape,et al.  Evidence of a novel B/C recombinant exhibiting unique breakpoints of near full-length HIV type 1 genome from Northeastern India. , 2008, AIDS research and human retroviruses.

[4]  B. Korber,et al.  Deciphering Human Immunodeficiency Virus Type 1 Transmission and Early Envelope Diversification by Single-Genome Amplification and Sequencing , 2008, Journal of Virology.

[5]  G. Shaw,et al.  4E10-Resistant Variants in a Human Immunodeficiency Virus Type 1 Subtype C-Infected Individual with an Anti-Membrane-Proximal External Region-Neutralizing Antibody Response , 2007, Journal of Virology.

[6]  C. Gray,et al.  Genetic characteristics of HIV-1 subtype C envelopes inducing cross-neutralizing antibodies. , 2007, Virology.

[7]  Mark Connors,et al.  Broad HIV-1 neutralization mediated by CD4-binding site antibodies , 2007, Nature Medicine.

[8]  P. Seth,et al.  Genetic diversity of HIV type 1 subtype C env gene sequences from India. , 2007, AIDS research and human retroviruses.

[9]  S Gnanakaran,et al.  Clade-Specific Differences between Human Immunodeficiency Virus Type 1 Clades B and C: Diversity and Correlations in C3-V4 Regions of gp120 , 2007, Journal of Virology.

[10]  Hui Li,et al.  Neutralizing Antibody Responses in Acute Human Immunodeficiency Virus Type 1 Subtype C Infection , 2007, Journal of Virology.

[11]  C. Blish,et al.  HIV-1 subtype A envelope variants from early in infection have variable sensitivity to neutralization and to inhibitors of viral entry , 2007, AIDS.

[12]  D. Heckerman,et al.  Founder Effects in the Assessment of HIV Polymorphisms and HLA Allele Associations , 2007, Science.

[13]  R. Paranjape,et al.  Extensive cross-reactive neutralizing antibody response in Indian patients with limited genetic diversity of HIV-1. , 2007, Virology.

[14]  S. Gnanakaran,et al.  Unique Mutational Patterns in the Envelope α2 Amphipathic Helix and Acquisition of Length in gp120 Hypervariable Domains Are Associated with Resistance to Autologous Neutralization of Subtype C Human Immunodeficiency Virus Type 1 , 2007, Journal of Virology.

[15]  Tongqing Zhou,et al.  Structural definition of a conserved neutralization epitope on HIV-1 gp120 , 2007, Nature.

[16]  J. Hoxie,et al.  A conserved dileucine motif mediates clathrin and AP-2-dependent endocytosis of the HIV-1 envelope protein. , 2006, Molecular biology of the cell.

[17]  R. Benarous,et al.  Tail-interacting protein TIP47 is a connector between Gag and Env and is required for Env incorporation into HIV-1 virions , 2006, Proceedings of the National Academy of Sciences.

[18]  J. Overbaugh,et al.  Human Immunodeficiency Virus Type 1 V1-V2 Envelope Loop Sequences Expand and Add Glycosylation Sites over the Course of Infection, and These Modifications Affect Antibody Neutralization Sensitivity , 2006, Journal of Virology.

[19]  Feng Gao,et al.  Genetic and Neutralization Properties of Subtype C Human Immunodeficiency Virus Type 1 Molecular env Clones from Acute and Early Heterosexually Acquired Infections in Southern Africa , 2006, Journal of Virology.

[20]  Lynn Morris,et al.  Insensitivity of Paediatric HIV-1 Subtype C Viruses to Broadly Neutralising Monoclonal Antibodies Raised against Subtype B , 2006, PLoS medicine.

[21]  C. Hager-Braun,et al.  The HIV-Neutralizing Monoclonal Antibody 4E10 Recognizes N-Terminal Sequences on the Native Antigen1 , 2006, The Journal of Immunology.

[22]  Xiping Wei,et al.  Evidence for Potent Autologous Neutralizing Antibody Titers and Compact Envelopes in Early Infection with Subtype C Human Immunodeficiency Virus Type 1 , 2006, Journal of Virology.

[23]  D. Burton,et al.  GP120: target for neutralizing HIV-1 antibodies. , 2006, Annual review of immunology.

[24]  D. Richman,et al.  Simian Immunodeficiency Virus Engrafted with Human Immunodeficiency Virus Type 1 (HIV-1)-Specific Epitopes: Replication, Neutralization, and Survey of HIV-1-Positive Plasma , 2006, Journal of Virology.

[25]  R. Paranjape,et al.  Molecular Analysis of gp41 Sequences of HIV Type 1 Subtype C from India , 2006, Journal of acquired immune deficiency syndromes.

[26]  Myron S. Cohen,et al.  Genital tract reservoirs , 2006, Current opinion in HIV and AIDS.

[27]  D. Burton,et al.  Structure-Function Analysis of the Epitope for 4E10, a Broadly Neutralizing Human Immunodeficiency Virus Type 1 Antibody , 2006, Journal of Virology.

[28]  B. Korber,et al.  Consistent Patterns of Change during the Divergence of Human Immunodeficiency Virus Type 1 Envelope from That of the Inoculated Virus in Simian/Human Immunodeficiency Virus-Infected Macaques , 2006, Journal of Virology.

[29]  J. Binley,et al.  Characterizing anti-HIV monoclonal antibodies and immune sera by defining the mechanism of neutralization. , 2006, Human antibodies.

[30]  R. Desrosiers,et al.  Virion Envelope Content, Infectivity, and Neutralization Sensitivity of Simian Immunodeficiency Virus , 2005, Journal of Virology.

[31]  Xiping Wei,et al.  Human Immunodeficiency Virus Type 1 env Clones from Acute and Early Subtype B Infections for Standardized Assessments of Vaccine-Elicited Neutralizing Antibodies , 2005, Journal of Virology.

[32]  Lynn Morris,et al.  Recommendations for the Design and Use of Standard Virus Panels To Assess Neutralizing Antibody Responses Elicited by Candidate Human Immunodeficiency Virus Type 1 Vaccines , 2005, Journal of Virology.

[33]  Lijun Rong,et al.  Alanine Scanning Mutants of the HIV gp41 Loop* , 2005, Journal of Biological Chemistry.

[34]  Yang Liu,et al.  Characterization of Human Immunodeficiency Virus Type 1 (HIV-1) Envelope Variation and Neutralizing Antibody Responses during Transmission of HIV-1 Subtype B , 2005, Journal of Virology.

[35]  Dorothy M. Lang,et al.  Selection for Human Immunodeficiency Virus Type 1 Envelope Glycosylation Variants with Shorter V1-V2 Loop Sequences Occurs during Transmission of Certain Genetic Subtypes and May Impact Viral RNA Levels , 2005, Journal of Virology.

[36]  Peter D. Kwong,et al.  Antigenic conservation and immunogenicity of the HIV coreceptor binding site , 2005, The Journal of experimental medicine.

[37]  R. Paranjape,et al.  Subtype B and subtype C HIV type 1 recombinants in the northeastern state of Manipur, India. , 2005, AIDS research and human retroviruses.

[38]  Surojit Sarkar,et al.  Antibody Neutralization Escape Mediated by Point Mutations in the Intracytoplasmic Tail of Human Immunodeficiency Virus Type 1 gp41 , 2005, Journal of Virology.

[39]  K. Gernert,et al.  Multiple domains of the SIV Env protein determine virus replication efficiency and neutralization sensitivity. , 2005, Virology.

[40]  H. Katinger,et al.  Anti-Human Immunodeficiency Virus Type 1 (HIV-1) Antibodies 2F5 and 4E10 Require Surprisingly Few Crucial Residues in the Membrane-Proximal External Region of Glycoprotein gp41 To Neutralize HIV-1 , 2005, Journal of Virology.

[41]  D. Montefiori,et al.  Evaluating Neutralizing Antibodies Against HIV, SIV, and SHIV in Luciferase Reporter Gene Assays , 2004, Current protocols in immunology.

[42]  Renate Kunert,et al.  Comprehensive Cross-Clade Neutralization Analysis of a Panel of Anti-Human Immunodeficiency Virus Type 1 Monoclonal Antibodies , 2004, Journal of Virology.

[43]  R. Paranjape,et al.  Full-length gag sequences of HIV type 1 subtype C recent seroconverters from Pune, India. , 2004, AIDS research and human retroviruses.

[44]  T. V. Srikanth,et al.  gp120 sequences from HIV type 1 subtype C early seroconverters in India. , 2004, AIDS research and human retroviruses.

[45]  R. Doms,et al.  Modulation of Env Content in Virions of Simian Immunodeficiency Virus: Correlation with Cell Surface Expression and Virion Infectivity , 2004, Journal of Virology.

[46]  R. Doms,et al.  Impact of Mutations in the Coreceptor Binding Site on Human Immunodeficiency Virus Type 1 Fusion, Infection, and Entry Inhibitor Sensitivity , 2004, Journal of Virology.

[47]  Bette T. Korber,et al.  Envelope-Constrained Neutralization-Sensitive HIV-1 After Heterosexual Transmission , 2004, Science.

[48]  R. Paranjape,et al.  Genetic analysis of Indian HIV-1 nef: subtyping, variability and implications. , 2004, Microbes and infection.

[49]  Peter D Kwong,et al.  Epitope mapping and characterization of a novel CD4-induced human monoclonal antibody capable of neutralizing primary HIV-1 strains. , 2003, Virology.

[50]  Gennaro Ciliberto,et al.  Structural analysis of the epitope of the anti-HIV antibody 2F5 sheds light into its mechanism of neutralization and HIV fusion. , 2003, Journal of molecular biology.

[51]  Ping Zhu,et al.  Antibody Domain Exchange Is an Immunological Solution to Carbohydrate Cluster Recognition , 2003, Science.

[52]  R. Benarous,et al.  Targeting of the Human Immunodeficiency Virus Type 1 Envelope to the trans-Golgi Network through Binding to TIP47 Is Required for Env Incorporation into Virions and Infectivity , 2003, Journal of Virology.

[53]  Martin A. Nowak,et al.  Antibody neutralization and escape by HIV-1 , 2003, Nature.

[54]  Paul W. H. I. Parren,et al.  Fine Mapping of the Interaction of Neutralizing and Nonneutralizing Monoclonal Antibodies with the CD4 Binding Site of Human Immunodeficiency Virus Type 1 gp120 , 2003, Journal of Virology.

[55]  Peter D. Kwong,et al.  HIV-1 evades antibody-mediated neutralization through conformational masking of receptor-binding sites , 2002, Nature.

[56]  Joseph Sodroski,et al.  Characterization of CD4-induced epitopes on the HIV type 1 gp120 envelope glycoprotein recognized by neutralizing human monoclonal antibodies. , 2002, AIDS research and human retroviruses.

[57]  R. Brookmeyer,et al.  Rapid disease progression in human immunodeficiency virus type 1-infected seroconverters in India. , 2002, AIDS research and human retroviruses.

[58]  J. Sodroski,et al.  Mutagenic Stabilization and/or Disruption of a CD4-Bound State Reveals Distinct Conformations of the Human Immunodeficiency Virus Type 1 gp120 Envelope Glycoprotein , 2002, Journal of Virology.

[59]  Peter D. Kwong,et al.  The Mannose-Dependent Epitope for Neutralizing Antibody 2G12 on Human Immunodeficiency Virus Type 1 Glycoprotein gp120 , 2002, Journal of Virology.

[60]  H. Katinger,et al.  The Broadly Neutralizing Anti-Human Immunodeficiency Virus Type 1 Antibody 2G12 Recognizes a Cluster of α1→2 Mannose Residues on the Outer Face of gp120 , 2002, Journal of Virology.

[61]  Feng Gao,et al.  Diversity Considerations in HIV-1 Vaccine Selection , 2002, Science.

[62]  J. Kappes,et al.  Emergence of Resistant Human Immunodeficiency Virus Type 1 in Patients Receiving Fusion Inhibitor (T-20) Monotherapy , 2002, Antimicrobial Agents and Chemotherapy.

[63]  Susan Zolla-Pazner,et al.  Truncation of the Cytoplasmic Domain Induces Exposure of Conserved Regions in the Ectodomain of Human Immunodeficiency Virus Type 1 Envelope Protein , 2002, Journal of Virology.

[64]  D. Montefiori,et al.  Regional Clustering of Shared Neutralization Determinants on Primary Isolates of Clade C Human Immunodeficiency Virus Type 1 from South Africa , 2002, Journal of Virology.

[65]  Paul W. H. I. Parren,et al.  Broadly Neutralizing Antibodies Targeted to the Membrane-Proximal External Region of Human Immunodeficiency Virus Type 1 Glycoprotein gp41 , 2001, Journal of Virology.

[66]  G. Learn,et al.  Human Immunodeficiency Virus Type 1 Env Sequences from Calcutta in Eastern India: Identification of Features That Distinguish Subtype C Sequences in India from Other Subtype C Sequences , 2001, Journal of Virology.

[67]  Garrett M. Morris,et al.  Crystal Structure of a Neutralizing Human IgG Against HIV-1: A Template for Vaccine Design , 2001, Science.

[68]  J. Haas,et al.  Identification of Two Sequences in the Cytoplasmic Tail of the Human Immunodeficiency Virus Type 1 Envelope Glycoprotein That Inhibit Cell Surface Expression , 2001, Journal of Virology.

[69]  W A Hendrickson,et al.  Structures of HIV-1 gp120 envelope glycoproteins from laboratory-adapted and primary isolates. , 2000, Structure.

[70]  A. Lapedes,et al.  Timing the ancestor of the HIV-1 pandemic strains. , 2000, Science.

[71]  J. Sodroski,et al.  Fine definition of a conserved CCR5-binding region on the human immunodeficiency virus type 1 glycoprotein 120. , 2000, AIDS research and human retroviruses.

[72]  E. Freed,et al.  Genetic Evidence for an Interaction between Human Immunodeficiency Virus Type 1 Matrix and α-Helix 2 of the gp41 Cytoplasmic Tail , 2000, Journal of Virology.

[73]  F. McCutchan,et al.  Understanding the genetic diversity of HIV-1. , 2000, AIDS.

[74]  M. Kalish,et al.  Subtypes of HIV type 1 circulating in India: partial envelope sequences. , 1999, AIDS research and human retroviruses.

[75]  R. Paranjape,et al.  Isolation & preliminary characterization of two HIV-2 strains from Pune, India. , 1999, The Indian journal of medical research.

[76]  R. Benarous,et al.  Interactions of the Cytoplasmic Domains of Human and Simian Retroviral Transmembrane Proteins with Components of the Clathrin Adaptor Complexes Modulate Intracellular and Cell Surface Expression of Envelope Glycoproteins , 1999, Journal of Virology.

[77]  K. Lole,et al.  Full-Length Human Immunodeficiency Virus Type 1 Genomes from Subtype C-Infected Seroconverters in India, with Evidence of Intersubtype Recombination , 1999, Journal of Virology.

[78]  L. Stamatatos,et al.  Effect of major deletions in the V1 and V2 loops of a macrophage-tropic HIV type 1 isolate on viral envelope structure, cell entry, and replication. , 1998, AIDS research and human retroviruses.

[79]  Ying Sun,et al.  A conserved HIV gp120 glycoprotein structure involved in chemokine receptor binding. , 1998, Science.

[80]  J. Sodroski,et al.  The HIV-1 envelope glycoproteins: fusogens, antigens, and immunogens. , 1998, Science.

[81]  Peter D. Kwong,et al.  The antigenic structure of the HIV gp120 envelope glycoprotein , 1998, Nature.

[82]  R. Means,et al.  A role for carbohydrates in immune evasion in AIDS , 1998, Nature Medicine.

[83]  B. Chesebro,et al.  Effects of CCR5 and CD4 Cell Surface Concentrations on Infections by Macrophagetropic Isolates of Human Immunodeficiency Virus Type 1 , 1998, Journal of Virology.

[84]  R. Bollinger,et al.  Transmission of genetically diverse strains of HIV-1 in Pune, India. , 1998, The Indian journal of medical research.

[85]  L. Stamatatos,et al.  Macrophage tropism of human immunodeficiency virus type 1 and utilization of the CC-CKR5 coreceptor , 1997, Journal of virology.

[86]  J. Sodroski,et al.  Antibody cross-competition analysis of the human immunodeficiency virus type 1 gp120 exterior envelope glycoprotein , 1996, Journal of virology.

[87]  K Schulten,et al.  VMD: visual molecular dynamics. , 1996, Journal of molecular graphics.

[88]  E. Freed,et al.  Domains of the human immunodeficiency virus type 1 matrix and gp41 cytoplasmic tail required for envelope incorporation into virions , 1996, Journal of virology.

[89]  D. Birx,et al.  Differential role of V3-specific antibodies in neutralization assays involving primary and laboratory-adapted isolates of HIV type 1. , 1995, AIDS research and human retroviruses.

[90]  E. Freed,et al.  The Role of Human Immunodeficiency Virus Type 1 Envelope Glycoproteins in Virus Infection (*) , 1995, The Journal of Biological Chemistry.

[91]  J. Sodroski,et al.  Involvement of the V1/V2 variable loop structure in the exposure of human immunodeficiency virus type 1 gp120 epitopes induced by receptor binding , 1995, Journal of virology.

[92]  G. Kapoor,et al.  A genetic analysis of HIV‐1 from Punjab, India reveals the presence of multiple variants , 1995, AIDS.

[93]  P. Thongcharoen,et al.  HIV-1 Variants in South and South-East Asia , 1995, International journal of STD & AIDS.

[94]  J. Thompson,et al.  CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. , 1994, Nucleic acids research.

[95]  P. Berman,et al.  Cryptic nature of envelope V3 region epitopes protects primary monocytotropic human immunodeficiency virus type 1 from antibody neutralization , 1994, Journal of virology.

[96]  T. Quinn,et al.  Presence in India of HIV type 1 similar to North American strains. , 1994, AIDS research and human retroviruses.

[97]  D. Ho,et al.  Genotypic and phenotypic characterization of HIV-1 patients with primary infection. , 1993, Science.

[98]  E. Holmes,et al.  Selection for specific sequences in the external envelope protein of human immunodeficiency virus type 1 upon primary infection , 1993, Journal of virology.

[99]  X. Yu,et al.  Mutations in the cytoplasmic domain of human immunodeficiency virus type 1 transmembrane protein impair the incorporation of Env proteins into mature virions , 1993, Journal of virology.

[100]  B. Hahn,et al.  Truncation of the human immunodeficiency virus type 1 transmembrane glycoprotein cytoplasmic domain blocks virus infectivity , 1992, Journal of virology.

[101]  X. Yu,et al.  Mutational analysis of conserved N-linked glycosylation sites of human immunodeficiency virus type 1 gp41 , 1992, Journal of virology.

[102]  E. Coligan Current protocols in immunology , 1991 .

[103]  Desmond G. Higgins,et al.  Fast and sensitive multiple sequence alignments on a microcomputer , 1989, Comput. Appl. Biosci..

[104]  J. Jurka,et al.  Multiple aligned sequence editor (MASE). , 1988, Trends in biochemical sciences.

[105]  D. Montefiori,et al.  Evaluation of antiviral drugs and neutralizing antibodies to human immunodeficiency virus by a rapid and sensitive microtiter infection assay , 1988, Journal of clinical microbiology.

[106]  J. Sodroski,et al.  Functional regions of the envelope glycoprotein of human immunodeficiency virus type 1. , 1987, Science.

[107]  B. Haynes,et al.  Frequent detection and isolation of cytopathic retroviruses (HTLV-III) from patients with AIDS and at risk for AIDS. , 1984, Science.