New and old complex recombinant HIV-1 strains among patients with primary infection in 1996-2006 in France: The French ANRS CO06 primo cohort study

Retrovirology

Volumn 5, Issue , 2008, Pages

  Frange, Pierre ^a   Galimand, Julie ^a   Vidal, Nicole ^b   Goujard, Cécile ^c   Deveau, Christiane ^c,d,e   Souala, Faouzi ^f   Peeters, Martine ^b   Meyer, Laurence ^c,d,e   Rouzioux, Christine ^a   Chaix, Marie Laure ^a  

^a UNIVERSITÉ PARIS DESCARTES   (France)

^b UNIVERSITÉ DE MONTPELLIER   (France)

^c BICÊTRE HOSPITAL   (France)

^d INSERM   (France)

^e UNIVERSITÉ PARIS SACLAY   (France)

^f PONTCHAILLOU UNIVERSITY HOSPITAL   (France)

Author keywords

[No Author keywords available]

Indexed keywords

RNA DIRECTED DNA POLYMERASE; VIRUS DNA; VIRUS ENVELOPE PROTEIN;

ADULT; AMINO ACID SEQUENCE; ARTICLE; BOOTSTRAPPING; COHORT ANALYSIS; CONTROLLED STUDY; FEMALE; FOUNDER EFFECT; FRANCE; GENETIC VARIABILITY; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS 1; HUMAN IMMUNODEFICIENCY VIRUS 1 INFECTION; MAJOR CLINICAL STUDY; MALE; MOLECULAR EPIDEMIOLOGY; MOLECULAR PHYLOGENY; NONHUMAN; NUCLEOTIDE SEQUENCE; SEQUENCE ANALYSIS; STRAIN DIFFERENCE; VIRUS IDENTIFICATION; VIRUS ISOLATION; VIRUS MORPHOLOGY; VIRUS RECOMBINANT; VIRUS STRAIN; CLASSIFICATION; DNA SEQUENCE; GENETIC RECOMBINATION; GENETICS; HUMAN IMMUNODEFICIENCY VIRUS INFECTION; ISOLATION AND PURIFICATION; MIDDLE AGED; MOLECULAR GENETICS; PHYLOGENY; VIROLOGY; VIRUS GENOME;

HUMAN IMMUNODEFICIENCY VIRUS 1;

ADULT; FEMALE; FRANCE; GENOME, VIRAL; HIV INFECTIONS; HIV-1; HUMANS; MALE; MIDDLE AGED; MOLECULAR SEQUENCE DATA; PHYLOGENY; RECOMBINATION, GENETIC; SEQUENCE ANALYSIS, DNA; VARIATION (GENETICS); VIRAL ENVELOPE PROTEINS;

EID: 53149137082     PISSN: None     EISSN: 17424690     Source Type: Journal    
DOI: 10.1186/1742-4690-5-69     Document Type: Article

References (33)

1. Burke DS Recombination in HIV: An important viral evolutionary strategy Emerg Infect Dis 1997, 3(3);253-259. 9284369
2. Charpentier C Nora T Tenaillon O Clavel F Hance AJ Extensive recombination among human immunodeficiency virus type 1 quasispecies makes an important contribution to viral diversity in individual patients J Virol 2006, 80(5):2472-2482. 1395372 16474154 10.1128/ JVI.80.5.2472-2482.2006
3. Simon F Mauclere P Roques P Loussert-Ajaka I Muller-Trutwin MC Saragosti S Georges-Courbot MC Barre-Sinoussi F Brun-Vezinet F Identification of a new human immunodeficiency virus type 1 distinct from group M and group O Nat Med 1998, 4(9):1032-1037. 10.1038/2017 9734396
4. Toni T Adje-Toure C Vidal N Minga A Huet C Borger MY Recordon-Pinson P Masquelier B Nolan M Nkengasong J Fleury HJ Delaporte E Peeters M Presence of CRF09∐x and complex CRF02_AG/CRF09∐x recombinant HIV type 1 strains in Cote d'Ivoire, West Africa AIDS Res Hum Retroviruses 2005, 21(7):667-672. 10.1089/aid.2005.21.667 16060839
5. Powell RL Zhao J Konings FA Tang S Nanfack A Burda S Urbanski MM Saa DR Hewlett I Nyambi PN Identification of a novel circulating recombinant form (CRF) 36∐x in Cameroon that combines two CRFs (01Æ and 02_AG) with ancestral lineages of subtypes A and G AIDS Res Hum Retroviruses 2007, 23(8):1008-1019. 10.1089/aid.2006.0289 17725418
6. Wang B Lau KA Ong LY Shah M Steain MC Foley B Dwyer DE Chew CB Kamarulzaman A Ng KP Saksena NK Complex patterns of the HIV-1 epidemic in Kuala Lumpur, Malaysia: Evidence for expansion of circulating recombinant form CRF33_01B and detection of multiple other recombinants Virology 2007, 367(2);288-297. 10.1016/j.virol.2007.05.033 17604072
7. Hemelaar J Gouws E Ghys PD Osmanov S Global and regional distribution of HIV-1 genetic subtypes and recombinants in 2004 Aids 2006, 20(16):W13-23. 10.1097/01.aids.0000247564.73009.bc 17053344
8. Chaix ML Descamps D Harzic M Schneider V Deveau C Tamalet C Pellegrin I Izopet J Ruffault A Masquelier B Meyer L Rouzioux C Brun-Vezinet F Costagliola D Stable prevalence of genotypic drug resistance mutations but increase in non-B virus among patients with primary HIV-1 infection in France Aids 2003, 17(18):2635-2643. 10.1097/00002030-200312050-00011 14685058
9. Descamps D Chaix ML Andre P Brodard V Cottalorda J Deveau C Harzic M Ingrand D Izopet J Kohli E Masquelier B Mouajjah S Palmer P Pellegrin I Plantier JC Poggi C Rogez S Ruffault A Schneider V Signori-Schmuck A Tamalet C Wirden M Rouzioux C Brun-Vezinet F Meyer L Costagliola D French national sentinel survey of antiretroviral drug resistance in patients with HIV-1 primary infection and in antiretroviral-naive chronically infected patients in 2001-2002 J Acquir Immune Defic Syndr 2005, 38(5):545-552. 10.1097/01.qai.0000155201.51232.2e 15793364
10. Semaille C Barin F Cazein F Pillonel J Lot F Brand D Plantier JC Bernillon P Le Vu S Pinget R Desenclos JC Monitoring the dynamics of the HIV epidemic using assays for recent infection and serotyping among new HIV diagnoses: Experience after 2 years in France J Infect Dis 2007, 196(3):377-383. 10.1086/519387 17597452
11. Chaix ML C. Deveau, C. Goujard, J. Galimand, N. Saïchi, Z. Nagy, I. Pellegrin, C. Delaugerre, L. Meyer, C. Rouzioux and the ANRS Primo Study Group Increase of the HIV-1 non-B subtypes frequency and response to HAART in patients enrolled in the French Primo Cohort study and treated at the time of primary infection: February 5-8 2006; Denver, Colorado, USA. 2006.
12. Wensing AM van de Vijver DA Angarano G Asjo B Balotta C Boeri E Camacho R Chaix ML Costagliola D De Luca A Derdelinckx I Grossman Z Hamouda O Hatzakis A Hemmer R Hoepelman A Horban A Korn K Kucherer C Leitner T Loveday C MacRae E Maljkovic I de Mendoza C Meyer L Nielsen C Op de Coul EL Ormaasen V Paraskevis D Perrin L Puchhammer-Stockl E Ruiz L Salminen M Schmit JC Schneider F Schuurman R Soriano V Stanczak G Stanojevic M Vandamme AM Van Laethem K Violin M Wilbe K Yerly S Zazzi M Boucher CA Prevalence of drug-resistant HIV-1 variants in untreated individuals in Europe: Implications for clinical management J Infect Dis 2005, 192(6):958-966. 10.1086/432916 16107947
13. Goujard C Bonarek M Meyer L Bonnet F Chaix ML Deveau C Sinet M Galimand J Delfraissy JF Venet A Rouzioux C Morlat P CD4 cell count and HIV DNA level are independent predictors of disease progression after primary HIV type 1 infection in untreated patients Clin Infect Dis 2006, 42(5):709-715. 10.1086/500213 16447119
14. Delwart EL Shpaer EG Louwagie J McCutchan FE Grez M Rubsamen-Waigmann H Mullins JI Genetic relationships determined by a DNA heteroduplex mobility assay: Analysis of HIV-1 env genes Science 1993, 262(5137):1257-1261. 10.1126/science.8235655 8235655
15. Vidal N Mulanga C Bazepeo SE Lepira F Delaporte E Peeters M Identification and molecular characterization of subsubtype A4 in central Africa AIDS Res Hum Retroviruses 2006, 22(2):182-187. 10.1089/ aid.2006.22.182 16478401
16. Parker SR Sequence Navigator. Multiple sequence alignment software Methods Mol Biol 1997, 70:145-154. 9089610
17. Mokili JL Rogers M Carr JK Simmonds P Bopopi JM Foley BT Korber BT Birx DL McCutchan FE Identification of a novel clade of human immunodeficiency virus type 1 in Democratic Republic of Congo AIDS Res Hum Retroviruses 2002, 18(11):817-823. 10.1089/08892220260139567 12167273
18. Vidal N Mulanga-Kabeya C Nzilambi N Delaporte E Peeters M Identification of a complex env subtype E HIV type 1 virus from the democratic republic of congo, recombinant with A, G, H, J, K, and unknown subtypes AIDS Res Hum Retroviruses 2000, 16(18):2059-2064. 10.1089/088922200750054800 11153090
19. Vidal N Frange P Chaix ML Mulanga C Lepira F Bazepeo SE Goujard C Meyer L Rouzioux C Delaporte E Peeters M Characterization of an old complex circulating recombinant form, CRF27∐x, originating from the Democratic Republic of Congo (DRC) and circulating in France AIDS Res Hum Retroviruses 2008, 24(2):315-321. 10.1089/aid.2007.0241 18257687
20. Thompson JD Higgins DG Gibson TJ CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Nucleic Acids Res 1994, 22(22):4673-4680. 308517 7984417 10.1093/nar/22.22.4673
21. Page RD TreeView: An application to display phylogenetic trees on personal computers Comput Appl Biosci 1996, 12(4):357-358. 8902363
22. Salminen MO Carr JK Burke DS McCutchan FE Identification of breakpoints in intergenotypic recombinants of HIV type 1 by bootscanning AIDS Res Hum Retroviruses 1995, 11(11):1423-1425. 8573403
23. Alizon M Wain-Hobson S Montagnier L Sonigo P Genetic variability of the AIDS virus: Nucleotide sequence analysis of two isolates from African patients Cell 1986, 46(1):63-74. 10.1016/0092-8674(86)90860-3 2424612
24. Jonassen TO Grinde B Asjo B Hasle G Hungnes O Intersubtype recombinant HIV type 1 involving HIV-MAL-like and subtype H-like sequence in four Norwegian cases AIDS Res Hum Retroviruses 2000, 16(1):49-58. 10.1089/ 088922200309593 10628816
25. Rodenburg CM Li Y Trask SA Chen Y Decker J Robertson DL Kalish ML Shaw GM Allen S Hahn BH Gao F Near full-length clones and reference sequences for subtype C isolates of HIV type 1 from three different continents AIDS Res Hum Retroviruses 2001, 17(2):161-168. 10.1089/08892220150217247 11177395
26. Vergne L Peeters M Mpoudi-Ngole E Bourgeois A Liegeois F Toure-Kane C Mboup S Mulanga-Kabeya C Saman E Jourdan J Reynes J Delaporte E Genetic diversity of protease and reverse transcriptase sequences in non-subtype-B human immunodeficiency virus type 1 strains: Evidence of many minor drug resistance mutations in treatment-naive patients J Clin Microbiol 2000, 38(11):3919-3925. 87518 11060045
27. Vidal N Mulanga C Bazepeo SE Mwamba JK Tshimpaka J Kashi M Mama N Valea D Delaporte E Lepira F Peeters M HIV type 1 pol gene diversity and antiretroviral drug resistance mutations in the Democratic Republic of Congo (DRC) AIDS Res Hum Retroviruses 2006, 22(2):202-206. 10.1089/ aid.2006.22.202 16478404
28. Montavon C Toure-Kane C Liegeois F Mpoudi E Bourgeois A Vergne L Perret JL Boumah A Saman E Mboup S Delaporte E Peeters M Most env and gag subtype A HIV-1 viruses circulating in West and West Central Africa are similar to the prototype AG recombinant virus IBNG J Acquir Immune Defic Syndr 2000, 23(5):363-374. 10866228
29. Niama FR Toure-Kane C Vidal N Obengui P Bikandou B Ndoundou Nkodia MY Montavon C Diop-Ndiaye H Mombouli JV Mokondzimobe E Diallo AG Delaporte E Parra HJ Peeters M Mboup S HIV-1 subtypes and recombinants in the Republic of Congo Infect Genet Evol 2006, 6(5):337-343. 10.1016/ j.meegid.2005.12.001 16473564
30. Toure-Kane C Montavon C Faye MA Gueye PM Sow PS Ndoye I Gaye-Diallo A Delaporte E Peeters M Mboup S Identification of all HIV type 1 group M subtypes in Senegal, a country with low and stable seroprevalence AIDS Res Hum Retroviruses 2000, 16(6):603-609. 10.1089/088922200309025 10777151
31. Lievre L Deveau C Gerbe J Enel P Tran L De Castro N Costagliola D Meyer L Yearly number of patients diagnosed with primary HIV-1 infection in France estimated by a capture-recapture approach Aids 2006, 20(18):2392-2395. 10.1097/QAD.0b013e32801104b0 17117029
32. Vidal N Peeters M Mulanga-Kabeya C Nzilambi N Robertson D Ilunga W Sema H Tshimanga K Bongo B Delaporte E Unprecedented degree of human immunodeficiency virus type 1 (HIV-1) group M genetic diversity in the Democratic Republic of Congo suggests that the HIV-1 pandemic originated in Central Africa J Virol 2000, 74(22):10498-10507. 110924 11044094 10.1128/JVI.74.22.10498-10507.2000
33. Vidal N Mulanga C Bazepeo SE Mwamba JK Tshimpaka JW Kashi M Mama N Laurent C Lepira F Delaporte E Peeters M Distribution of HIV-1 variants in the Democratic Republic of Congo suggests increase of subtype C in Kinshasa between 1997 and 2002 J Acquir Immune Defic Syndr 2005, 40(4):456-462. 10.1097/01.qai.0000159670.18326.94 16280702