Phylogenetic and phenotypic analysis of HIV type 1 env gp120 in cases of subtype C mother-to-child transmission

AIDS Research and Human Retroviruses

Volumn 18, Issue 18, 2002, Pages 1415-1423

  Zhang, Hong ^a,b   Ortí, Guillermo ^b   Du, Qiujiang ^a,b   He, Jun ^a,b   Kankasa, Chipepo ^c   Bhat, Ganapati ^c   Wood, Charles ^a,b  

^a UNIVERSITY OF NEBRASKA LINCOLN   (United States)

^b UNIVERSITY OF NEBRASKA   (United States)

^c UNIVERSITY TEACHING HOSPITAL   (Zambia)

Author keywords

[No Author keywords available]

Indexed keywords

GLYCOPROTEIN GP 120;

ADULT; AMINO ACID SEQUENCE; ARTICLE; CONTROLLED STUDY; FEMALE; GENE SEQUENCE; GENETIC VARIABILITY; GENOTYPE; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS 1; HUMAN IMMUNODEFICIENCY VIRUS INFECTION; IN VITRO STUDY; INFANT; MACROPHAGE; MAJOR CLINICAL STUDY; MALE; PHENOTYPE; PHYLOGENY; PRIORITY JOURNAL; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS; SYNCYTIUM; T LYMPHOCYTE; VIRUS ISOLATION; VIRUS TRANSMISSION; ZAMBIA;

ADOLESCENT; ADULT; AMINO ACID SEQUENCE; DISEASE TRANSMISSION, VERTICAL; FEMALE; HIV ENVELOPE PROTEIN GP120; HIV INFECTIONS; HIV-1; HUMANS; INFANT, NEWBORN; MALE; MOLECULAR SEQUENCE DATA; PHENOTYPE; PHYLOGENY; SEQUENCE ANALYSIS, DNA; VARIATION (GENETICS);

EID: 0036936406     PISSN: 08892229     EISSN: None     Source Type: Journal    
DOI: 10.1089/088922202320935492     Document Type: Article

References (24)

1. Dickover RE, Garratty EM, Plaeger S, and Bryson YJ: Perinatal transmission of major, minor, and multiple maternal human immunodeficiency virus type 1 variants in utero and intrapartum. J Virol 2001 ;75:2194-2203.
2. Wolinsky SM, Wike CM, Korber BT, et al.: Selective transmission of human immunodeficiency virus type-1 variants from mothers to infants. Science 1992;255:1134-1137.
3. Lamers SL, Sleasman JW, She JX, et al.: Persistence of multiple maternal genotypes of human immunodeficiency virus type I in infants infected by vertical transmission. J Clin Invest 1994;93:380-390.
4. Briant L, Wade CM, Puel J, Brown AJ, and Guyader M: Analysis of envelope sequence variants suggests multiple mechanisms of mother-to-child transmission of human immunodeficiency virus type 1. J Virol 1995;69:3778-3788.
5. Pasquier C, Cayrou C, Blancher A, et al.: Molecular evidence for mother-to-child transmission of multiple variants by analysis of RNA and DNA sequences of human immunodeficiency virus type 1. J Virol 1998;72:8493-8501.
6. Ndung'u T, Renjifo B, and Essex M: Construction and analysis of an infectious human immunodeficiency virus type 1 subtype C molecular clone. J Virol 2001;75:4964-4972.
7. Cecilia D, Kulkarni SS, Tripathy SP, Gangakhedkar RR, Paranjape RS, and Gadkari DA: Absence of coreceptor switch with disease progression in human immunodeficiency virus infections in India. Virology 2000;271:253-258.
8. Orti G, Pearse DE, and Avise JC: Phylogenetic assessment of length variation at a microsatellite locus. Proc Natl Acad Sci USA 1997;94:10745-10749.
9. Fu YX: Estimating effective population size or mutation rate using the frequencies of mutations of various classes in a sample of DNA sequences. Genetics 1994;138:1375-1386.
10. Meyerhans A, Cheynier R, Albert J, et al.: Temporal fluctuations in HIV quasispecies in vivo are not reflected by sequential HIV isolations. Cell 1989;58:901-910.
11. Kumar S, Tamura K, and Nei M: MEGA: Molecular Evolutionary Genetics Analysis, Version 1. Pennsylvania State University, University Park, Pennsylvania, 1993.
12. Jiang S: HIV- 1 - Co-receptors binding. Nat Med 1997;3:367-368.
13. Kim FM, Kolson DL, Balliet JW, Srinivasan A, and Collman RG: V3-independent determinants of macrophage tropism in a primary human immunodeficiency virus type 1 isolate. J Virol 1995;69:1755-1761.
14. Fouchier RA, Groenink M, Kootstra NA, et al.: Phenotype-associated sequence variation in the third variable domain of the human immunodeficiency virus type 1 gp120 molecule. J Virol 1992;66:3183-3187.
15. Shioda T, Levy JA, and Cheng-Mayer C: Small amino acid changes in the V3 hypervariable region of gpl20 can affect the T-cell-line and macrophage tropism of human immunodeficiency virus type 1. Proc Natl Acad Sci USA 1992;89:9434-9438.
16. Xiao L, Owen SM, Goldman I, et al.: CCR5 coreceptor usage of non-syncytium-inducing primary HIV-1 is independent of phylogenetically distinct global HIV-1 isolaes: Delineation of consensus motif in the V3 domain that predicts CCR-5 usage. Virology 1998;240:83-92.
17. Oelrichs RB, Shrestha IL, Anderson DA, and Deacon NJ: The explosive human immunodeficiency virus type 1 epidemic among injecting drug users of Kathmandu, Nepal, is caused by a subtype C virus of restricted genetic diversity. J Virol 2000;74:1149-1157.
18. Reitter JN, Means RE, and Desrosiers RC: A role for carbohydrate s in immune evasion in AIDS. Nat Med 1998;4:679-684.
19. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, and Higgins DG: The CLUSTAL_X Windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997;25:4876-4882.
20. Swofford DL: PAUP*: Phylogenetic Analysis Using Parsimony and Other Methods, Version 4.0 Beta. Sinauer Associates, Sunderland, Massachusetts, 1998.
21. Posada D and Crandall KA: MODELTEST: Testing the model of DNA substitution. Bioinformatics 1998;14:817-818.
22. Worobey M: A novel approach to detecting and measuring recombination: New insights into evolution in viruses, bacteria, and mitochondria. Mol Biol Evol 2001;18:1425-1434.
23. Rambaut A and Worobey M: PIST: Program for the Informative-Sites Test, Version 1. Department of Zoology, Oxford University, Oxford, 2001
24. Sutthent R, Foongladda S, Chearskul S, et al.: V3 sequence diversity of HIV-1 subtype E in infected mothers and their infants. J Acquir Immune Defic Syndr Hum Retrovirol 1998;18:323-331