Human immunodeficiency virus type 1 subtype C molecular phylogeny: Consensus sequence for an AIDS vaccine design?

Journal of Virology

Volumn 76, Issue 11, 2002, Pages 5435-5451

  Novitsky, V ^a   Smith, U R ^a   Gilbert, P ^a   McLane, M F ^a   Chigwedere, P ^a   Williamson, C ^a   Ndung'u, T ^a   Klein, I ^a   Chang, S Y ^a   Peter, T ^a   Thior, I ^a   Foley, B T ^a   Gaolekwe, S ^a   Rybak, N ^a   Gaseitsiwe, S ^a   Vannberg, F ^a   Marlink, R ^a   Lee, T H ^a   Essex, M ^a  

^a HARVARD SCHOOL OF PUBLIC HEALTH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GAG PROTEIN; HUMAN IMMUNODEFICIENCY VIRUS ANTIGEN; HUMAN IMMUNODEFICIENCY VIRUS VACCINE; IMMUNOGLOBULIN ENHANCER BINDING PROTEIN; NEF PROTEIN; POL PROTEIN; REV PROTEIN; TRANSACTIVATOR PROTEIN; VIF PROTEIN; VIRUS ENVELOPE PROTEIN; VPR PROTEIN; VPU PROTEIN;

ACQUIRED IMMUNE DEFICIENCY SYNDROME; AFRICA; ARTICLE; CHINA; CONTROLLED STUDY; DEVELOPING COUNTRY; GENE SEQUENCE; GENETIC VARIABILITY; GEOGRAPHIC DISTRIBUTION; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS 1; HUMAN IMMUNODEFICIENCY VIRUS INFECTION; HUMAN IMMUNODEFICIENCY VIRUS PREVALENCE; INDIA; MOLECULAR PHYLOGENY; NEIGHBOR JOINING METHOD; NONHUMAN; NUCLEOTIDE SEQUENCE; PARSIMONY ANALYSIS; PRIORITY JOURNAL; PROMOTER REGION; SEQUENCE ANALYSIS;

ACQUIRED IMMUNODEFICIENCY SYNDROME; AIDS VACCINES; AMINO ACID SEQUENCE; BASE SEQUENCE; CONSENSUS SEQUENCE; DNA, VIRAL; DRUG DESIGN; GENE PRODUCTS, GAG; HIV INFECTIONS; HIV LONG TERMINAL REPEAT; HIV-1; HUMANS; MOLECULAR SEQUENCE DATA; PHYLOGENY;

EID: 0036094391     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/JVI.76.11.5435-5451.2002     Document Type: Article

References (57)

1. Timing of the introduction into Ethiopia of subcluster C′ of HIV type I subtype C
2. Identification of a genetic subcluster of HIV type 1 subtype C (C′) widespread in Ethiopia
3. HIV-1 recombinant poxvirus vaccine induces cross-protection against HIV-2 challenge in rhesus macaques
4. AIDS vaccine development in primate models
5. Reduction of simian-human immunodeficiency virus 89.6P viremia in rhesus monkeys by recombinant modified vaccinia virus Ankara vaccination
6. Cross-clade human immunodeficiency virus (HIV)-specific cytotoxic T-lymphocyte responses in HIV-infected Zambians
7. Covariability of V3 loop amino acids
8. Protection from HIV-1 envelope-bearing chimeric simian immunodeficiency virus (SHIV) in rhesus macaques infected with attenuated SIV: Consequences of challenge
9. PeptGen: Designing peptides for immunological studies and application to HIV consensus sequences
10. Cytotoxic T-lymphocyte cross-reactivity among different human immunodeficiency virus type 1 clades: Implications for vaccine development
11. Cellular immunity to human immunodeficiency virus type 1 (HIV-1) clades: Relevance to HIV-1 vaccine trials in Uganda
12. Increased promoter diversity reveals a complex phylogeny of human immunodeficiency virus type 1 subtype C in India
13. Protective effects of a live attenuated SIV vaccine with a deletion in the nef gene
14. Biological characterization of human immunodeficiency virus type 1 clones derived from different organs of an AIDS patient by long-range PCR
15. Distinct recognition of non-clade B human immunodeficiency virus type 1 epitopes by cytotoxic T lymphocytes generated from donors infected in Africa
16. Protection of SIV mac-infected macaque monkeys against superinfection by a simian immunodeficiency virus expressing envelope glycoproteins of HIV type 1
17. Cross-reactions between the cytotoxic T-lymphocyte responses of human immunodeficiency virus-infected African and European patients
18. Accelerating the development and future availability of HIV-1 vaccines: Why, when, where, and how?
19. State of the HIV pandemic
20. Evolutionary trees from DNA sequences: A maximum likelihood approach
21. A comprehensive panel of near-full-length clones and reference sequences for non-subtype B isolates of human immunodeficiency virus type 1
22. Sieve analysis: Methods for assessing from vaccine trial data how vaccine efficacy varies with genotypic and phenotypic pathogen variation
23. BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT
24. Genetic analysis of five near full-length sequences of human immunodeficiency virus type 1 from Ethiopia
25. The role of nonhuman primate models in AIDS vaccine development
26. Timing the ancestor of the HIV-1 pandemic strains
27. Covariation of mutations in the V3 loop of human immunodeficiency virus type 1 envelope protein: An information theoretic analysis
28. Numbering positions in HIV relative to hXB2GC
29. Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination
30. Protection of macaques against vaginal transmission of a pathogenic HIV-1/SIV chimeric virus by passive infusion of neutralizing antibodies
31. Cross-clade recognition of p55 by cytotoxic T lymphocytes in HIV-1 infection
32. Understanding the genetic diversity of HIV-1
33. Rhesus macaques previously infected with simian/human immunodeficiency virus are protected from vaginal challenge with pathogenic SIVmac239
34. An infectious DNA clone of HIV type 1 subtype C
35. Evidence for viral virulence as a predominant factor limiting human immunodeficiency virus vaccine efficacy
36. The role of non-human primates in the development of an AIDS vaccine
37. Construction and analysis of an infectious human immunodeficiency virus type 1 subtype C molecular clone
38. Molecular cloning and biological characterization of full-length HIV-1 subtype C from Botswana
39. Identification of most frequent HLA class I antigen specificities in Botswana: Relevance for HIV vaccine design
40. Identification of human immunodeficiency virus type 1 subtype C Gag-, Tat-, Rev-, and Nef-specific Elispot-based cytotoxic T-lymphocyte responses for AIDS vaccine design
41. HIV type 1 A/J recombinant with a pronounced pol gene mosaicism
42. Molecular cloning and phylogenetic analysis of HIV-1 subtype C: A set of 23 full-length clones from Botswana
43. fastDNAML: A tool for construction of phylogenetic trees of DNA sequences using maximum likelihood
44. Genetic diversity of HIV-1: The moving target
45. Near full-length clones and reference sequences for subtype C isolates of HIV type 1 from three different continents
46. Cytotoxic T cell responses to multiple conserved HIV epitopes in HIV-resistant prostitutes in Nairobi
47. Full-length sequence of an Ethiopian human immunodeficiency virus type 1 (HIV-1) isolate of genetic subtype C
48. 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
49. Live, attenuated simian immunodeficiency virus vaccines elicit potent resistance against a challenge with a human immunodeficiency virus type 1 chimeric virus
50. The evolutionary and biogeographic history of HIV-1 subtype C
51. The ClustalX windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
52. Characterization of full length HIV-1 subtype C sequences from South Africa
53. Cross-clade envelope glycoprotein 160-specific CD8+ cytotoxic T lymphocyte responses in early HIV type 1 clade B infection
54. Protection by live, attenuated simian immunodeficiency virus against heterologous challenge
55. Vaccine protection by a triple deletion mutant of simian immunodeficiency virus
56. An African HIV-1 sequence from 1959 and implications for the origin of the epidemic