Molecular characterization of a recombinant HIV type 1 isolate (A/G/E/?): Unidentified regions may be derived from parental subtype E sequences

AIDS Research and Human Retroviruses

Volumn 16, Issue 9, 2000, Pages 845-855

  Paraskevis, D ^a   Magiorkinis, M ^a   Paparizos, V ^a   Pavlakis, G N ^b   Hatzakis, A ^a  

^a UNIVERSITY OF ATHENS MEDICAL SCHOOL   (Greece)

^b NATIONAL CANCER INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GLYCOPROTEIN GP 41; IMMUNOGLOBULIN ENHANCER BINDING PROTEIN;

ARTICLE; GENE CLUSTER; GENE SEQUENCE; GENETIC RECOMBINATION; GENETIC VARIABILITY; HUMAN IMMUNODEFICIENCY VIRUS 1; MOSAIC VIRUS; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; VIRUS GENOME; VIRUS ISOLATION;

ADULT; BASE SEQUENCE; DEMOCRATIC REPUBLIC OF THE CONGO; DNA PRIMERS; DNA, VIRAL; GENOME, VIRAL; HIV INFECTIONS; HIV LONG TERMINAL REPEAT; HIV-1; HUMANS; MALE; MOLECULAR SEQUENCE DATA; MOSAICISM; PHYLOGENY; RECOMBINATION, GENETIC; SEQUENCE HOMOLOGY, NUCLEIC ACID; VARIATION (GENETICS);

EID: 0034631339     PISSN: 08892229     EISSN: None     Source Type: Journal    
DOI: 10.1089/08892220050042783     Document Type: Article

References (29)

1. 1. Gao F, Yue L, Craig S, Thornton CL, Robertson DL, McCutchan FE, Bradac JA, Sharp PM, and Hahn BH: Genetic variation of HIV type 1 in four World Health Organization-sponsored vaccine evaluation sites: generation of functional envelope (glycoprotein 160) clones representative of sequence subtypes A, B, C, and E. AIDS Res Hum Retroviruses 1994;10:1359-1368.
2. 2. Korber B, Foley B, McCutchan F, Kuiken C, Hahn BH, Mellors JW, and Sodroski J: Human Retroviruses and AIDS: A Compilation and Analysis of Nucleic Acid and Amino Acid Sequences. Los Alamos National Laboratory, Los Alamos, New Mexico, 1998.
3. 3. Roques P, Menu E, Narwa R, Scarlatti G, Tresoldi E, Damond F, Mauclere P, Dormont D, Chaouat G, Simon F, and Barré-Sinoussi F: An unusual HIV type 1 env sequence embedded in a mosaic virus from Cameroon: Identification of a new env clade. European Network on the study of in utero transmission. AIDS Res Hum Retroviruses 1999;15:1585-1589.
4. 4. Leitner T and Albert J: A new genetic subtype of HIV-1. In: Human Retroviruses and AIDS: A Compilation and Analysis of Nucleic Acid and Amino Acid Sequences. Myers G, Korber B, Wain-Hobson S, Jeang KT, Henderson LE, and Pavlakis GN, (eds.). Los Alamos National Laboratory, Los Alamos, New Mexico, 1995, pp. III-147-III-150.
5. 5. Gurtler LG, Hauser PH, Eberle J, Von-Brunn A, Knapp S, Zekeng L, Tsague, and Kaptue L: A new subtype of human immunodeficiency virus type 1 (MVP-5180) from Cameroon. J Virol 1994;68:1581-1585.
6. 6. Vanden Haesevelde M, Decourt JL, Deleys RJ, Vanderborght B, Van-der-Groen G, Van-Heuverswijn H, and Saman E: Genomic cloning and complete nucleotide sequence analysis of a highly divergent African human immunodeficiency virus isolate. J Virol 1994;68:1586-1596.
7. 7. Simon F, Mauclere P, Rouques P, Loussert-Ajaka I, Muller-Trutwin MC, Saragosti S, Georges-Gourbot MC, Barré-Sinoussi F, and Brun-Vezinet E: Identification of a new human immunodeficiency virus type 1 distinct from group M and group O. Nature Med 1998;4:1032-1037.
8. 8. Robertson DL, Hahn BH, and Sharp PM: Recombination in AIDS viruses. J Mol Evol 1995;40:249-259.
9. 9. Robertson DL, Sharp PM, McCutchan FE, and Hahn BH: Recombination in HIV-1. Nature (London) 1995;374:124-126.
10. 10. Sabino EC, Shpaer EG, Morgado MG, Korber BTM, Diaz RS, Bongertz V, Cavalcante S, Galvao-Castro B, Mullins JI, and Mayer A: Identification of human immunodeficiency virus type 1 envelope genes recombinant between subtypes B and F in two epidemiologically linked individuals from Brazil. J Virol 1994;68: 6340-6346.
11. 11. Carr JK, Salminen MO, Koch C, Gotte D, Artenstein AW, Hegerich PA, St. Louis D, Burke DS, and McCutchan FE: Full-length sequence and mosaic structure of a human immunodeficiency virus type 1 isolate from Thailand. J Virol 1996;70:5935-5943.
12. 12. Diaz RS, Sabino EC, Mayer A, Mosley JW, Busch MP, and the Transfusion Safety Study Group: Dual human immunodeficiency virus type 1 infection and recombination in a dually exposed transfusion recipient. J Virol 1995;69:3273-3281.
13. 13. Robertson DL, Gao F, Hahn BH, and Sharp PM: Intersubtype recombinant HIV-1 sequences. In: Human Retroviruses and AIDS: A Compilation and Analysis of Nucleic Acid and Amino Acid Sequences (Korber B, Foley B, Kuiken C, Leitner T, McCutchan F, Mellors JW, and Hahn B, eds.). Los Alamos National Laboratory, Los Alamos, New Mexico, 1997, pp. III-25-III-30.
14. 14. Gao F, Robertson DL, Carruthers CD, Morrison SG, Jian B, Chen Y, Barré-Sinoussi F, Girard M, Srinivasan A, Abimiku AG, Shaw G, Sharp PM, and Hahn BH: A comprehensive panel of near-full-length clones and reference sequences of non-subtype B isolates of human immunodeficiency virus type 1. J Virol 1998;72: 5680-5698.
15. 15. Gao F, Robertson DL, Morrison SG, Hui H, Craig S, Decker J, Fultz PN, Girard M, Shaw GM, Hahn BH, and Sharp PM: The heterosexual human immunodeficiency virus type 1 epidemic in Thailand is caused by an intersubtype (A/E) recombinant of African origin. J Virol 1996;70:7013-7029.
16. 16. McCutchan FE, Salminen MO, Carr JK, and Burke DS: HIV-1 genetic diversity. AIDS 1996;10(Suppl. 3):S13-S20.
17. 17. Carr JK, Salminen MO, Albert J, Sanders-Buell E, Gotte D, Birx DL, and McCutchan FE: Full genome sequences of human immunodeficiency virus type 1 subtypes G and A/G intersubtype recombinants. Virology 1998;217:22-31.
18. 18. Nasioulas G, Paraskevis D, Magiorkinis E, Theodoridou M, and Hatzakis A: Molecular analysis of the full-length genome of the HIV-1 "subtype I": Evidence of triple recombination. AIDS Res Hum Retroviruses 1999;15:745-758.
19. 19. Gao F, Robertson DL, Carruthers CD, Li Y, Baues E, Kostrikis LG, Salminen MO, Bibollet-Ruche F, Peeters M, Ho DD, Shaw GM, Sharp PM, and Hahn BH: An isolate of human immunodeficiency virus type I represents a complex mosaic comprising three different group M subtypes (A, G, and I). J Virol 1998;72: 10234-10241.
20. 20. Nasioulas G, Paraskevis D, Paparizos V, Lazanas M, Karafoulidou A, and Hatzakis A: Genotypic characterization of human immunodeficiency virus type one in Greece. AIDS Res Hum Retroviruses 1998;14:685-690.
21. 21. Higgins DG and Sharp PM: Fast and sensitive multiple sequence alignments on a microcomputer. CABIOS Commun 1989;5:151-153.
22. 22. Kimura M: A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequence. J Mol Evol 1980;16:111-120.
23. 23. Felsenstein J: PHYLIP(Phylogeny Inference Package), 3.5 Ed. Department of Genetics, University of Washington, Seattle, Washington, 1993.
24. 24. Olsen GJ, Matsuda H, Hagstrom R, and Overbeek R: fastDNAml: A tool for construction of phylogenetic trees of DNA sequences using maximum likelihood. Comput Appl Biosci 1994;10:41-48.
25. 25. Salminen MO, Carr JK, Burke DS, and McCutchan FE: Genotyping of HIV-1. In: Human Retroviruses and AIDS 1995: A Compilation and Analysis of Nucleic Acid and Amino Acid Sequences (Myers G, Korber B, WainHobson S, Jeang KT, Henderson LE, and Pavlakis GN, eds.). Los Alamos National Laboratory, Los Alamos, New Mexico, 1995, pp. III-30-III-34.
26. 26. Oelrichs RB, Workman C, Laukkanen T, McCutchan FE, and Deacon NJ: A novel subtype A/G/J recombinant full-length HIV type 1 genome from Burkina Faso. AIDS Res Hum Retroviruses 1998;14:1495-1500.
27. 27. Montano MA, Nixon CP, and Essex M: Dysregulation through the NF-κB enhancer and TATA box of the human immunodeficiency virus type 1 subtype E promoter. J Virol 1998;72:8446-8452.
28. 28. Choi DJ, Dube S, Spicer TP, Slade HB, Jensen FC, and Poiesz BJ: HIV type 1 isolate Z321, the strain used to make a therapeutic HIV type 1 immunogen, is intersubtype recombinant. AIDS Res Hum Retroviruses 1997;13:357-361.
29. 29. Janssens W, Buve A, and Nkengasong JN: The puzzle of HIV-1 subtypes in Africa. AIDS 1997;11:705-712.