New Strain of Simian Immunodeficiency Virus Identified in Wild-Born Chimpanzees from Central Africa

PLoS ONE

Volumn 7, Issue 9, 2012, Pages

  Souquière, Sandrine ^a   Makuwa, Maria ^a   Sallé, Bettina ^a   Kazanji, Mirdad ^a,b  

^a CENTRE INTERNATIONAL DE RECHERCHES MÉDICALES DE FRANCEVILLE   (Gabon)

^b INSTITUT PASTEUR DE BANGUI   (Central African Republic)

Author keywords

[No Author keywords available]

Indexed keywords

VIRUS RNA;

ANIMAL CELL; ANIMAL EXPERIMENT; ARTICLE; CD4 LYMPHOCYTE COUNT; CHIMPANZEE; CONGO; CONTROLLED STUDY; ENVELOPE GENE; FOLLOW UP; GABON; GENE SEQUENCE; GENETIC ORGANIZATION; GROUP SPECIFIC ANTIGEN GENE; NEF GENE; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; POLYMERASE CHAIN REACTION; REV GENE; SEROLOGY; SIMIAN ACQUIRED IMMUNODEFICIENCY SYNDROME; SIMIAN IMMUNODEFICIENCY VIRUS; STRUCTURAL GENE; TAT GENE; VIF GENE; VIRUS CARRIER; VIRUS GENE; VIRUS GENOME; VIRUS IDENTIFICATION; VIRUS ISOLATION; VIRUS LOAD; VIRUS REPLICATION; VIRUS STRAIN; VPR GENE; VPU GENE; WILD ANIMAL;

AFRICA, CENTRAL; AMINO ACID SEQUENCE; ANIMALS; ANIMALS, WILD; BLOTTING, WESTERN; FEMALE; GENES, ENV; GENOME, VIRAL; GEOGRAPHY; MALE; MOLECULAR SEQUENCE DATA; PAN TROGLODYTES; PHYLOGENY; RNA, VIRAL; SIMIAN ACQUIRED IMMUNODEFICIENCY SYNDROME; SIMIAN IMMUNODEFICIENCY VIRUS; VIRAL PROTEINS; VIRUS REPLICATION;

HUMAN IMMUNODEFICIENCY VIRUS 1; PAN; PAN TROGLODYTES TROGLODYTES; PRIMATES; SIMIAN IMMUNODEFICIENCY VIRUS;

EID: 84866316681     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0044298     Document Type: Article

References (67)

1. Apetrei C, Robertson DL, Marx PA, (2004) The history of SIVS and AIDS: epidemiology, phylogeny and biology of isolates from naturally SIV infected non-human primates (NHP) in Africa. Front Biosci 9: 225-254.
2. VandeWoude S, Apetrei C, (2006) Going wild: lessons from naturally occurring T-lymphotropic lentiviruses. Clin Microbiol Rev 19: 728-762.
3. Hahn BH, Shaw GM, De Cock KM, Sharp PM, (2000) AIDS as a zoonosis: scientific and public health implications. Science 287: 607-614.
4. Gao F, Bailes E, Robertson DL, Chen Y, Rodenburg CM, et al. (1999) Origin of HIV-1 in the chimpanzee Pan troglodytes troglodytes. Nature 397: 436-441.
5. Sharp PM, Shaw GM, Hahn BH, (2005) Simian immunodeficiency virus infection of chimpanzees. J Virol 79: 3891-3902.
6. Peeters M, Honore C, Huet T, Bedjabaga L, Ossari S, et al. (1989) Isolation and partial characterization of an HIV-related virus occurring naturally in chimpanzees in Gabon. Aids 3: 625-630.
7. Huet T, Cheynier R, Meyerhans A, Roelants G, Wain-Hobson S, (1990) Genetic organization of a chimpanzee lentivirus related to HIV-1. Nature 345: 356-359.
8. Janssens W, Fransen K, Peeters M, Heyndrickx L, Motte J, et al. (1994) Phylogenetic analysis of a new chimpanzee lentivirus SIVcpz-gab2 from a wild-captured chimpanzee from Gabon. AIDS Res Hum Retroviruses 10: 1191-1192.
9. Bibollet-Ruche F, Gao F, Bailes E, Saragosti S, Delaporte E, et al. (2004) Complete genome analysis of one of the earliest SIVcpzPtt strains from Gabon (SIVcpzGAB2). AIDS Res Hum Retroviruses 20: 1377-1381.
10. Peeters M, Fransen K, Delaporte E, Van den Haesevelde M, Gershy-Damet GM, et al. (1992) Isolation and characterization of a new chimpanzee lentivirus (simian immunodeficiency virus isolate cpz-ant) from a wild-captured chimpanzee. Aids 6: 447-451.
11. Muller-Trutwin MC, Corbet S, Souquiere S, Roques P, Versmisse P, et al. (2000) SIVcpz from a naturally infected Cameroonian chimpanzee: biological and genetic comparison with HIV-1 N. J Med Primatol. 29: 166-172.
12. Corbet S, Muller-Trutwin MC, Versmisse P, Delarue S, Ayouba A, et al. (2000) env sequences of simian immunodeficiency viruses from chimpanzees in Cameroon are strongly related to those of human immunodeficiency virus group N from the same geographic area. J Virol 74: 529-534.
13. Nerrienet E, Santiago ML, Foupouapouognigni Y, Bailes E, Mundy NI, et al. (2005) Simian immunodeficiency virus infection in wild-caught chimpanzees from cameroon. J Virol 79: 1312-1319.
14. Etienne L, Nerrienet E, LeBreton M, Bibila GT, Foupouapouognigni Y, et al. (2011) Characterization of a new simian immunodeficiency virus strain in a naturally infected Pan troglodytes troglodytes chimpanzee with AIDS related symptoms. Retrovirology 8: 4.
15. Simon F, Mauclere P, Roques P, Loussert-Ajaka I, Muller-Trutwin MC, et al. (1998) Identification of a new human immunodeficiency virus type 1 distinct from group M and group O. Nat Med. 4: 1032-1037.
16. Takehisa J, Kraus MH, Ayouba A, Bailes E, Van Heuverswyn F, et al. (2009) Origin and biology of simian immunodeficiency virus in wild-living western gorillas. J Virol 83: 1635-1648.
17. Van Heuverswyn F, Li Y, Neel C, Bailes E, Keele BF, et al. (2006) Human immunodeficiency viruses: SIV infection in wild gorillas. Nature 444: 164.
18. Neel C, Etienne L, Li Y, Takehisa J, Rudicell RS, et al. (2010) Molecular epidemiology of simian immunodeficiency virus infection in wild-living gorillas. J Virol 84: 1464-1476.
19. Plantier J-C, Leoz M, Dickerson J, De Oliveira F, Cordonnier F, et al. (2009) A new human immunodeficiency virus derived from gorillas. Nat Med 15: 871-872.
20. Oates JF, Groves CP, Jenkins PD, (2009) The type locality of Pan troglodytes vellerosus (Gray, 1862), and implications for the nomenclature of West African chimpanzees. Primates 50: 78-80.
21. Gagneux P, Gonder MK, Goldberg TL, Morin PA, (2001) Gene flow in wild chimpanzee populations: what genetic data tell us about chimpanzee movement over space and time. Philos Trans R Soc Lond B Biol Sci 356: 889-897.
22. Keele BF, Van Heuverswyn F, Li Y, Bailes E, Takehisa J, et al. (2006) Chimpanzee Reservoirs of Pandemic and Nonpandemic HIV-1. Science.
23. Van Heuverswyn F, Li Y, Bailes E, Neel C, Lafay B, et al. (2007) Genetic diversity and phylogeographic clustering of SIVcpzPtt in wild chimpanzees in Cameroon. Virology 368: 155-171.
24. Rudicell RS, Piel AK, Stewart F, Moore DL, Learn GH, et al. (2011) High prevalence of simian immunodeficiency virus infection in a community of savanna chimpanzees. J Virol 85: 9918-9928.
25. Sharp PM, Hahn BH, (2011) Origins of HIV and the AIDS Pandemic. Cold Spring Harb Perspect Med 1: a006841.
26. Bailes E, Gao F, Bibollet-Ruche F, Courgnaud V, Peeters M, et al. (2003) Hybrid origin of SIV in chimpanzees. Science 300: 1713.
27. Salemi M, De Oliveira T, Courgnaud V, Moulton V, Holland B, et al. (2003) Mosaic genomes of the six major primate lentivirus lineages revealed by phylogenetic analyses. J Virol 77: 7202-7213.
28. Keele B, Jones J, Terio K, Estes J, Rudicell R, et al. (2009) Increased mortality and AIDS-like immunopathology in wild chimpanzees infected with SIVcpz. Nature 460: 515-519.
29. Simon F, Souquiere S, Damond F, Kfutwah A, Makuwa M, et al. (2001) Synthetic peptide strategy for the detection of and discrimination among highly divergent primate lentiviruses. AIDS Res Hum Retroviruses 17: 937-952.
30. Wain LV, Bailes E, Bibollet-Ruche F, Decker JM, Keele BF, et al. (2007) Adaptation of HIV-1 to its human host. Mol Biol Evol 24: 1853-1860.
31. Bibollet-Ruche F, Heigele A, Keele BF, Easlick JL, Decker JM, et al. (2012) Efficient SIVcpz replication in human lymphoid tissue requires viral matrix protein adaptation. J Clin Invest 122: 1644-1652.
32. Nakayama KI, Nakayama K, (2006) Ubiquitin ligases: cell-cycle control and cancer. Nat Rev Cancer 6: 369-381.
33. Douglas JL, Viswanathan K, McCarroll MN, Gustin JK, Fruh K, et al. (2009) Vpu directs the degradation of the human immunodeficiency virus restriction factor BST-2/Tetherin via a {beta}TrCP-dependent mechanism. J Virol 83: 7931-7947.
34. Dube M, Roy BB, Guiot-Guillain P, Binette J, Mercier J, et al. (2010) Antagonism of tetherin restriction of HIV-1 release by Vpu involves binding and sequestration of the restriction factor in a perinuclear compartment. PLoS Pathog 6: e1000856.
35. Kirchhoff F, Schindler M, Bailer N, Renkema GH, Saksela K, et al. (2004) Nef proteins from simian immunodeficiency virus-infected chimpanzees interact with p21-activated kinase 2 and modulate cell surface expression of various human receptors. J Virol 78: 6864-6874.
36. Lee CH, Saksela K, Mirza UA, Chait BT, Kuriyan J, (1996) Crystal structure of the conserved core of HIV-1 Nef complexed with a Src family SH3 domain. Cell 85: 931-942.
37. Saksela K, Cheng G, Baltimore D, (1995) Proline-rich (PxxP) motifs in HIV-1 Nef bind to SH3 domains of a subset of Src kinases and are required for the enhanced growth of Nef+ viruses but not for down-regulation of CD4. EMBO J 14: 484-491.
38. Greenberg M, DeTulleo L, Rapoport I, Skowronski J, Kirchhausen T, (1998) A dileucine motif in HIV-1 Nef is essential for sorting into clathrin-coated pits and for downregulation of CD4. Curr Biol 8: 1239-1242.
39. Jeang KT, Gatignol A, (1994) Comparison of regulatory features among primate lentiviruses. Curr Top Microbiol Immunol 188: 123-144.
40. Sheehy AM, Gaddis NC, Choi JD, Malim MH, (2002) Isolation of a human gene that inhibits HIV-1 infection and is suppressed by the viral Vif protein. Nature 418: 646-650.
41. Stremlau M, Owens CM, Perron MJ, Kiessling M, Autissier P, et al. (2004) The cytoplasmic body component TRIM5alpha restricts HIV-1 infection in Old World monkeys. Nature 427: 848-853.
42. Neil SJ, Zang T, Bieniasz PD, (2008) Tetherin inhibits retrovirus release and is antagonized by HIV-1 Vpu. Nature 451: 425-430.
43. Jia B, Serra-Moreno R, Neidermyer W, Rahmberg A, Mackey J, et al. (2009) Species-specific activity of SIV Nef and HIV-1 Vpu in overcoming restriction by tetherin/BST2. PLoS Pathog 5: e1000429.
44. Zhang F, Wilson SJ, Landford WC, Virgen B, Gregory D, et al. (2009) Nef proteins from simian immunodeficiency viruses are tetherin antagonists. Cell Host Microbe 6: 54-67.
45. Sauter D, Schindler M, Specht A, Landford WN, Munch J, et al. (2009) Tetherin-driven adaptation of Vpu and Nef function and the evolution of pandemic and nonpandemic HIV-1 strains. Cell Host Microbe 6: 409-421.
46. Schmokel J, Sauter D, Schindler M, Leendertz FH, Bailes E, et al. (2011) The presence of a vpu gene and the lack of Nef-mediated downmodulation of T cell receptor-CD3 are not always linked in primate lentiviruses. J Virol 85: 742-752.
47. Mouinga-Ondeme A, Caron M, Nkoghe D, Telfer P, Marx P, et al. (2012) Cross-species transmission of simian foamy virus to humans in rural Gabon, Central Africa. J Virol 86: 1255-1260.
48. Santiago ML, Lukasik M, Kamenya S, Li Y, Bibollet-Ruche F, et al. (2003) Foci of endemic simian immunodeficiency virus infection in wild-living eastern chimpanzees (Pan troglodytes schweinfurthii). J Virol 77: 7545-7562.
49. Ondoa P, Kestens L, Davis D, Vereecken C, Willems B, et al. (2001) Longitudinal comparison of virus load parameters and CD8 T-cell suppressive capacity in two SIVcpz-infected chimpanzees. J Med Primatol 30: 243-253.
50. Heeney JL, Rutjens E, Verschoor EJ, Niphuis H, ten Haaft P, et al. (2006) Transmission of simian immunodeficiency virus SIVcpz and the evolution of infection in the presence and absence of concurrent human immunodeficiency virus type 1 infection in chimpanzees. J Virol 80: 7208-7218.
51. Goldstein S, Ourmanov I, Brown CR, Beer BE, Elkins WR, et al. (2000) Wide range of viral load in healthy african green monkeys naturally infected with simian immunodeficiency virus. J Virol 74: 11744-11753.
52. Chahroudi A, Meeker T, Lawson B, Ratcliffe S, Else J, et al. (2011) Mother-to-infant transmission of simian immunodeficiency virus is rare in sooty mangabeys and is associated with low viremia. J Virol 85: 5757-5763.
53. Taaffe J, Chahroudi A, Engram J, Sumpter B, Meeker T, et al. (2010) A five-year longitudinal analysis of sooty mangabeys naturally infected with simian immunodeficiency virus reveals a slow but progressive decline in CD4+ T-cell count whose magnitude is not predicted by viral load or immune activation. J Virol 84: 5476-5484.
54. Chan ML, Petravic J, Ortiz AM, Engram J, Paiardini M, et al. (2010) Limited CD4+ T cell proliferation leads to preservation of CD4+ T cell counts in SIV-infected sooty mangabeys. Proc Biol Sci 277: 3773-3781.
55. Terio KA, Kinsel MJ, Raphael J, Mlengeya T, Lipende I, et al. (2011) Pathologic lesions in chimpanzees (Pan trogylodytes schweinfurthii) from Gombe National Park, Tanzania, 2004-2010. J Zoo Wildl Med 42: 597-607.
56. Klatt NR, Silvestri G, Hirsch V, (2012) Nonpathogenic simian immunodeficiency virus infections. Cold Spring Harb Perspect Med 2: a007153.
57. Fransen K, Zhong P, De Beenhouwer H, Carpels G, Peeters M, et al. (1994) Design and evaluation of new, highly sensitive and specific primers for polymerase chain reaction detection of HIV-1 infected primary lymphocytes. Mol Cell Probes 8: 317-322.
58. Yang C, Pieniazek D, Owen S, Fridlund C, Nkengasong J, et al. (1999) Detection of phylogenetically diverse human immunodeficiency virus type 1 groups M and O from plasma by using highly sensitive and specific generic primers. J Clin Microbiol: 2581-2586.
59. Courgnaud V, Pourrut X, Bibollet-Ruche F, Mpoudi-Ngole E, Bourgeois A, et al. (2001) Characterization of a novel simian immunodeficiency virus from guereza colobus monkeys (Colobus guereza) in Cameroon: a new lineage in the nonhuman primate lentivirus family. J Virol 75: 857-866.
60. Souquiere S, Bibollet-Ruche F, Robertson DL, Makuwa M, Apetrei C, et al. (2001) Wild Mandrillus sphinx are carriers of two types of lentivirus. J Virol 75: 7086-7096.
61. Morin PA, Moore JJ, Chakraborty R, Jin L, Goodall J, et al. (1994) Kin selection, social structure, gene flow, and the evolution of chimpanzees. Science 265: 1193-1201.
62. Liu W, Worobey M, Li Y, Keele BF, Bibollet-Ruche F, et al. (2008) Molecular ecology and natural history of simian foamy virus infection in wild-living chimpanzees. PLoS Pathog 4: e1000097.
63. Ronquist F, Huelsenbeck JP, (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572-1574.
64. Thompson JD, Higgins DG, Gibson TJ, (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22: 4673-4680.
65. Jones DT, Taylor WR, Thornton JM, (1992) The rapid generation of mutation data matrices from protein sequences. Comput Appl Biosci 8: 275-282.
66. Dimmic MW, Rest JS, Mindell DP, Goldstein RA, (2002) rtREV: an amino acid substitution matrix for inference of retrovirus and reverse transcriptase phylogeny. J Mol Evol 55: 65-73.
67. Rouet F, Ekouevi DK, Chaix ML, Burgard M, Inwoley A, et al. (2005) Transfer and evaluation of an automated, low-cost real-time reverse transcription-PCR test for diagnosis and monitoring of human immunodeficiency virus type 1 infection in a West African resource-limited setting. J Clin Microbiol 43: 2709-2717.