Characterization of human papillomavirus type 154 and tissue tropism of gammapapillomaviruses

PLoS ONE

Volumn 9, Issue 2, 2014, Pages

  Ure, Agustín Enrique ^a   Forslund, Ola ^a  

^a LUND UNIVERSITY   (Sweden)

Author keywords

[No Author keywords available]

Indexed keywords

AMPLICON; ARTICLE; CASE REPORT; CHILD; CONTROLLED STUDY; FEMALE; GAMMAPAPILLOMAVIRUS; GENE AMPLIFICATION; GENETIC VARIABILITY; HUMAN; HUMAN PAPILLOMAVIRUS TYPE 136; HUMAN PAPILLOMAVIRUS TYPE 154; MALE; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PHYLOGENETIC TREE; POLYMERASE CHAIN REACTION; PRESCHOOL CHILD; ROLLING CIRCLE AMPLIFICATION; SEQUENCE HOMOLOGY; TISSUE SPECIFICITY; UNINDEXED SEQUENCE; VIRAL TROPISM; VIRUS CHARACTERIZATION; VIRUS DETECTION; VIRUS GENOME; VIRUS ISOLATION; WART VIRUS;

BASE SEQUENCE; BUTTOCKS; CHILD, PRESCHOOL; DNA, VIRAL; FEMALE; FOREHEAD; GAMMAPAPILLOMAVIRUS; GENETIC VARIATION; GENOME, VIRAL; HUMANS; INFANT; MALE; MOLECULAR SEQUENCE DATA; PAPILLOMAVIRUS INFECTIONS; PHYLOGENY; VIRAL TROPISM; WARTS;

EID: 84895758951     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0089342     Document Type: Article

References (73)

1. Bernard HU, Burk RD, DeVilliers EM, zur Hausen H (2012) Papillomaviridae. In: Viruses IC on T of, editor. Virus Taxonomy: Ninth Report of the International Committee on Taxonomy of Viruses. Elsevier Inc., Vol. 1. pp. 235-248.
2. De Villiers EM (2013) Cross-roads in the classification of papillomaviruses. Virology 445: 2-10.
3. Zur Hausen H (2002) Papillomaviruses and cancer: from basic studies to clinical application. Nat Rev Cancer 2: 342-350.
4. Lorincz AT, Reid R, Jenson AB, Greenberg MD, Lancaster W, et al. (1992) Human papillomavirus infection of the cervix: relative risk associations of 15 common anogenital types. Obstet Gynecol 79: 328-337.
5. Van Regenmortel MHV (2000) No Title. In: van Regenmortel MH V., Fauquet CM, Bishop DHL, Carstens E, Estes MK, et al., editors. In Seventh Report of the International Committee on Taxonomy of Viruses. New York, NY: Academic Press. pp. 3-16.
6. De Villiers EM, Fauquet C, Broker TR, Bernard HU, zur Hausen H (2004) Classification of papillomaviruses. Virology 324: 17-27. (Pubitemid 38737395)
7. Bernard HU, Burk RD, Chen Z, van Doorslaer K, zur Hausen H, et al. (2010) Classification of papillomaviruses (PVs) based on 189 PV types and proposal of taxonomic amendments. Virology 401: 70-79.
8. Antonsson A, Forslund O, Ekberg H, Sterner G, Hansson BG (2000) The ubiquity and impressive genomic diversity of human skin papillomaviruses suggest a commensalic nature of these viruses. J Virol 74: 11636-11641. (Pubitemid 32222312)
9. Antonsson A, Karanfilovska S, Lindqvist PG, Hansson BG (2003) General acquisition of human papillomavirus infections of skin occurs in early infancy. J Clin Microbiol 41: 2509-2514. (Pubitemid 36712461)
10. Forslund O, Antonsson A, Nordin P, Stenquist B, Hansson BG (1999) A broad range of human papillomavirus types detected with a general PCR method suitable for analysis of cutaneous tumours and normal skin. J Gen Virol 80: 2437-2443. (Pubitemid 29408373)
11. Jablonska S, Dabrowski J, Jakubowicz K (1972) Epidermodysplasia verruciformis as a model in studies on the role of papovaviruses in oncogenesis. Cancer Res 32: 583-589.
12. Jablonska S, Majewski S (1994) Epidermodysplasia verruciformis: immunological and clinical aspects. Curr Top Microbiol Immunol 186: 157-175. (Pubitemid 24099090)
13. Köhler A, Gottschling M, Manning K, Lehmann MD, Schulz E, et al. (2011) Genomic characterization of ten novel cutaneous human papillomaviruses from keratotic lesions of immunosuppressed patients. J Gen Virol 92: 1585-1594.
14. Weissenborn S, Neale RE, Waterboer T, Abeni D, Bavinck JNB, et al. (2012) Beta-papillomavirus DNA loads in hair follicles of immunocompetent people and organ transplant recipients. Med Microbiol Immunol 201: 117-125.
15. Söderlund-Strand A, Carlson J, Dillner J (2009) Modified general primer PCR system for sensitive detection of multiple types of oncogenic human papillomavirus. J Clin Microbiol 47: 541-546.
16. Schmitt M, Bravo IG, Snijders PJF, Gissmann L, Pawlita M, et al. (2006) Bead-based multiplex genotyping of human papillomaviruses. J Clin Microbiol 44: 504-512. (Pubitemid 43222244)
17. Hsu JYC, Chen ACH, Keleher A, McMillan NAJ, Antonsson A (2009) Shared and persistent asymptomatic cutaneous human papillomavirus infections in healthy skin. J Med Virol 81: 1444-1449.
18. Luft F, Klaes R, Nees M, Durst M, Heilmann V, et al. (2001) Detection of integrated papillomavirus sequences by ligation-mediated PCR (DIPS-PCR) and molecular characterization in cervical cancer cells. Int J Cancer 92: 9-17. (Pubitemid 32187026)
19. Bottalico D, Chen Z, Dunne A, Ostoloza J, McKinney S, et al. (2011) The oral cavity contains abundant known and novel human papillomaviruses from the Betapapillomavirus and Gammapapillomavirus genera. J Infect Dis 204: 787-792.
20. Foulongne V, Sauvage V, Hebert C, Dereure O, Cheval J, et al. (2012) Human skin microbiota: high diversity of DNA viruses identified on the human skin by high throughput sequencing. PLoS One 7: e38499. Available: http://dx.plos. org/10.1371/journal.pone.0038499. Accessed 2012 Nov 13.
21. Ullman CG, Haris PI, Galloway DA, Emery VC, Perkins SJ (1996) Predicted alpha-helix/beta-sheet secondary structures for the zinc-binding motifs of human papillomavirus E7 and E6 proteins by consensus prediction averaging and spectroscopic studies of E7. Biochem J 319: 229-239. (Pubitemid 26394763)
22. Dahiya A, Gavin MR, Luo RX, Dean DC (2000) Role of the LXCXE binding site in Rb function. Mol Cell Biol 20: 6799-6805.
23. Radulescu RT, Bellitti MR, Ruvo M, Cassani G, Fassina G (1995) Binding of the LXCXE insulin motif to a hexapeptide derived from retinoblastoma protein. Biochem Biophys Res Commun 206: 97-102.
24. Iyer LM, Leipe DD, Koonin EV, Aravind L (2004) Evolutionary history and higher order classification of AAA+ ATPases. J Struct Biol 146: 11-31. (Pubitemid 38369015)
25. Liu X, Schuck S, Stenlund A (2010) Structure-based mutational analysis of the bovine papillomavirus E1 helicase domain identifies residues involved in the nonspecific DNA binding activity required for double trimer formation. J Virol 84: 4264-4276.
26. Hegde RS (2002) The papillomavirus E2 proteins: structure, function, and biology. Annu Rev Biophys Biomol Struct 31: 343-360.
27. Hegde RS, Grossman SR, Laimins LA, Sigler PB (1992) Crystal structure at 1.7 A of the bovine papillomavirus-1 E2 DNA-binding domain bound to its DNA target. Nature 359: 505-512.
28. Doorbar J, Myers G (1996) The E4 Protein. Human Papillomaviruses 1996 Compendium. pp. 58-80.
29. Chen G, Stenlund A (2001) The E1 initiator recognizes multiple overlapping sites in the papillomavirus origin of DNA replication. J Virol 75: 292-302.
30. Ustav E, Ustav M, Szymanski P, Stenlund A (1993) The bovine papillomavirus origin of replication requires a binding site for the E2 transcriptional activator. Proc Natl Acad Sci 90: 898-902. (Pubitemid 23053917)
31. Venuti A, Paolini F, Nasir L, Corteggio A, Roperto S, et al. (2011) Papillomavirus E5: the smallest oncoprotein with many functions. Mol Cancer 10: 140.
32. Kovanda A, Kocjan BJ, Luzar B, Bravo IG, Poljak M (2011) Characterization of novel cutaneous human papillomavirus genotypes HPV-150 and HPV-151. PLoS One 6: e22529. Available: http://dx.plos.org/10.1371/journal.pone.0022529. Accessed 2013 July 27.
33. Vasiljevic N, Hazard K, Dillner J, Forslund O (2008) Four novel human betapapillomaviruses of species 2 preferentially found in actinic keratosis. J Gen Virol 89: 2467-2474.
34. Vasiljević N, Hazard K, Eliasson L, Ly H, Hunziker A, et al. (2007) Characterization of two novel cutaneous human papillomaviruses, HPV93 and HPV96. J Gen Virol 88: 1479-1483. (Pubitemid 46723229)
35. Zakrzewska K, Regalbuto E, Pierucci F, Arvia R, Mazzoli S, et al. (2012) Pattern of HPV infection in basal cell carcinoma and in perilesional skin biopsies from immunocompetent patients. Virol J 9: 309.
36. Kullander J, Handisurya A, Forslund O, Geusau A, Kirnbauer R, et al. (2008) Cutaneous human papillomavirus 88: remarkable differences in viral load. Int J Cancer 122: 477-480. (Pubitemid 350234739)
37. Ekström J, Forslund O, Dillner J (2010) Three novel papillomaviruses (HPV109, HPV112 and HPV114) and their presence in cutaneous and mucosal samples. Virology 397: 331-336.
38. Bzhalava D, Johansson H, Ekström J, Faust H, Möller B, et al. (2013) Unbiased approach for virus detection in skin lesions. PLoS One 8: e65953. Available: http://dx.plos.org/10.1371/journal.pone.0065953. Accessed 2013 July 15.
39. Forslund O, Johansson H, Madsen KG, Kofoed K (2013) The nasal mucosa contains a large diversity of human papillomavirus from the Beta- and Gammapapillomavirus genera. J Infect Dis: In press.
40. Phan TG, Vo NP, Aronen M, Jartti L, Jartti T, et al. (2013) Novel human gammapapillomavirus species in a nasal swab. Genome Announc 1: e0002213.
41. Bottalico D, Chen Z, Kocjan BJ, Seme K, Poljak M, et al. (2012) Characterization of human papillomavirus type 120: a novel betapapillomavirus with tropism for multiple anatomical niches. J Gen Virol 93: 1774-1779.
42. Chen Z, Schiffman M, Herrero R, Desalle R, Burk RD (2007) Human papillomavirus (HPV) types 101 and 103 isolated from cervicovaginal cells lack an E6 open reading frame (ORF) and are related to gamma-papillomaviruses. Virology 360: 447-453. (Pubitemid 46505022)
43. Nobre RJ, Herráez-Hernández E, Fei JW, Langbein L, Kaden S, et al. (2009) E7 oncoprotein of novel human papillomavirus type 108 lacking the E6 gene induces dysplasia in organotypic keratinocyte cultures. J Virol 83: 2907-2916.
44. Sturegård E, Johansson H, Ekström J, Hansson BG, Johnsson A, et al. (2013) Human papillomavirus typing in reporting of condyloma. Sex Transm Dis 40: 123-129.
45. Rector A, Tachezy R, Van Ranst M (2004) A sequence-independent strategy for detection and cloning of circular DNA virus genomes by using multiply primed rolling-circle amplification. J Virol 78: 4993-4998. (Pubitemid 38581449)
46. Ye J, Coulouris G, Zaretskaya I, Cutcutache I, Rozen S, et al. (2012) Primer-BLAST: a tool to design target-specific primers for polymerase chain reaction. BMC Bioinformatics 13: 134. Available: http://www.pubmedcentral.nih. gov/articlerender.fcgi?artid = 3412702&tool = pmcentrez&rendertype = abstract. Accessed 2013 Mar 3.
47. Letunic I, Doerks T, Bork P (2009) SMART 6: recent updates and new developments. Nucleic Acids Res 37: D229-32.
48. Finn RD, Mistry J, Tate J, Coggill P, Heger A, et al. (2010) The Pfam protein families database. Nucleic Acids Res 38: D211-22.
49. Edgar RC (2010) Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26: 2460-2461.
50. Okonechnikov K, Golosova O, Fursov M (2012) Unipro UGENE: a unified bioinformatics toolkit. Bioinformatics 28: 1166-1167.
51. Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32: 1792-1797.
52. Glez-Peña D, Gómez-Blanco D, Reboiro-Jato M, Fdez-Riverola F, Posada D (2010) ALTER: program-oriented conversion of DNA and protein alignments. Nucleic Acids Res 38: W14-8. Available: http://nar.oxfordjournals. org/content/38/suppl-2/W14. Accessed 2013 June 8.
53. Huson DH, Scornavacca C (2012) Dendroscope 3: an interactive tool for rooted phylogenetic trees and networks. Syst Biol 61: 1061-1067.
54. Stamatakis A (2006) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688-2690.
55. Rambaut A (2009) FigTree v1.3. Available: http://beast.bio.ed.ac.uk/ figtree.
56. Favre M, Obalek S, Jablonska S, Orth G (1989) Human papillomavirus (HPV) type 50, a type associated with epidermodysplasia verruciformis (EV) and only weakly related to other EV-specific HPVs. J Virol 63: 4910. (Pubitemid 19257876)
57. Sichero L, Pierce Campbell CM, Ferreira S, Sobrinho JS, Luiza Baggio M, et al. (2013) Broad HPV distribution in the genital region of men from the HPV infection in men (HIM) study. Virology: In Press.
58. Chouhy D, Bolatti EM, Piccirilli G, Sánchez A, Fernandez Bussy R, et al. (2013) Identification of human papillomavirus type 156, the prototype of a new human gammapapillomavirus species, by a generic and highly sensitive PCR strategy for long DNA fragments. J Gen Virol 94: 524-533.
59. Li J, Cai H, Xu Z, Wang Q, Hang D, et al. (2012) Nine complete genome sequences of cutaneous human papillomavirus genotypes isolated from healthy skin of individuals living in rural He Nan province, China. J Virol 86: 11936.
60. Johansson H, Bzhalava D, Ekström J, Hultin E, Dillner J, et al. (2013) Metagenomic sequencing of "HPV-negative" condylomas detects novel putative HPV types. Virology 440: 1-7.
61. Antonsson A, Erfurt C, Hazard K, Holmgren V, Simon M, et al. (2003) Prevalence and type spectrum of human papillomaviruses in healthy skin samples collected in three continents. J Gen Virol 84: 1881-1886. (Pubitemid 36805924)
62. Forslund O, Ly H, Reid C, Higgins G (2003) A broad spectrum of human papillomavirus types is present in the skin of Australian patients with non-melanoma skin cancers and solar keratosis. Br J Dermatol 149: 64-73. (Pubitemid 36966512)
63. Matsukura T, Iwasaki T, Kawashima M (1992) Molecular cloning of a novel human papillomavirus (type 60) from a plantar cyst with characteristic pathological changes. Virology 190: 561-564.
64. Gissmann L, Pfister H, Zur Hausen H (1977) Human papilloma viruses (HPV): characterization of four different isolates. Virology 76: 569-580. (Pubitemid 8078755)
65. Forslund O, Lindelöf B, Hradil E, Nordin P, Stenquist B, et al. (2004) High prevalence of cutaneous human papillomavirus DNA on the top of skin tumors but not in "Stripped" biopsies from the same tumors. J Invest Dermatol 123: 388-394. (Pubitemid 38951835)
66. Nordin P, Hansson BG, Hansson C, Blohmè I, Larkö O, et al. (2007) Human papilloma virus in skin, mouth and uterine cervix in female renal transplant recipients with or without a history of cutaneous squamous cell carcinoma. Acta Derm Venereol 87: 219-222. (Pubitemid 47226888)
67. Hazard K, Karlsson A, Andersson K, Ekberg H, Dillner J, et al. (2007) Cutaneous human papillomaviruses persist on healthy skin. J Invest Dermatol 127: 116-119. (Pubitemid 46005668)
68. Li L, Barry P, Yeh E, Glaser C, Schnurr D, et al. (2009) Identification of a novel human gammapapillomavirus species. J Gen Virol 90: 2413-2417.
69. Egawa K, Delius H, Matsukura T, Kawashima M, de Villiers EM (1993) Two novel types of human papillomavirus, HPV 63 and HPV 65: comparisons of their clinical and histological features and DNA sequences to other HPV types. Virology 194: 789-799.
70. Egawa N, Kawai K, Egawa K, Honda Y, Kanekura T, et al. (2012) Molecular cloning and characterization of a novel human papillomavirus, HPV 126, isolated from a flat wart-like lesion with intracytoplasmic inclusion bodies and a peculiar distribution of Ki-67 and p53. Virology 422: 99-104.
71. Egawa K, Kimmel R, De Villiers EM (2005) A novel type of human papillomavirus (HPV 95): comparison with infections of closely related human papillomavirus types. Br J Dermatol 153: 688-689. (Pubitemid 41248247)
72. Müller M, Kelly G, Fiedler M, Gissmann L (1989) Human papillomavirus type 48. J Virol 63: 4907-4908. (Pubitemid 19257874)
73. Mokili JL, Dutilh BE, Lim YW, Schneider BS, Taylor T, et al. (2013) Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness. PLoS One 8: e58404.