Characterization of sequence variations within HPV16 isolates among Indian women: Prediction of causal role of rare non-synonymous variations within intact isolates in cervical cancer pathogenesis

Virology

Volumn 377, Issue 1, 2008, Pages 143-150

  Bhattacharjee, Bornali ^a   Mandal, Nidhu Ranjan ^b   Roy, Sudipta ^c   Sengupta, Sharmila ^a  

^a INDIAN STATISTICAL INSTITUTE   (India)

^b Research Institute   (India)

^c QUADRA MEDICAL SERVICES PVT LTD   (India)

Author keywords

Cervical cancer; Genomic variations; Intact HPV16 isolates; Variant haplotypes

Indexed keywords

ADULT; AGED; ARTICLE; CONTROLLED STUDY; FEMALE; GENE FREQUENCY; GENETIC POLYMORPHISM; GENETIC VARIABILITY; HAPLOTYPE; HUMAN; HUMAN PAPILLOMAVIRUS TYPE 6; INDIAN; NONHUMAN; PATHOGENESIS; PRIORITY JOURNAL; SEQUENCE ANALYSIS; UTERINE CERVIX CANCER; VIRUS ISOLATION;

ADOLESCENT; ADULT; AGED; AMINO ACID SUBSTITUTION; BASE SEQUENCE; CASE-CONTROL STUDIES; DNA PRIMERS; DNA, VIRAL; FEMALE; GENOME, VIRAL; HUMAN PAPILLOMAVIRUS 16; HUMANS; INDIA; MIDDLE AGED; PAPILLOMAVIRUS INFECTIONS; POLYMORPHISM, SINGLE NUCLEOTIDE; UTERINE CERVICAL NEOPLASMS; VARIATION (GENETICS); VIRULENCE;

EID: 44949235994     PISSN: 00426822     EISSN: 10960341     Source Type: Journal    
DOI: 10.1016/j.virol.2008.04.007     Document Type: Article

References (47)

1. Andrea M.D., Mondini M., Azzimonti B., Dell'Oste V., Germano S., Gaudino G., Musso T., Landolfo S., and Gariglio M. Alpha- and betapapillomavirus E6/E7 genes differentially modulate pro-inflammatory gene expression. Virus Res. 124 (2007) 220-225
2. Arora R., Kumar A., Prusty B., Kailash U., Batra S., and Das B.C. Prevalence of high-risk human papillomavirus (HR-HPV) types 16 and 18 in healthy women with cytologically negative Pap smear. Eur. J. Obs. Gynecol. Repro. Biol. 121 (2005) 104-109
3. Ashrafi G.H., Haghshenas M.R., Marchetti B., O'Brien P.M., and Campo M.S. E5 protein of human papillomavirus type 16 selectively downregulates surface HLA class I. Int. J. Cancer 113 (2005) 276-283
4. Bandelt H.-J., Forster P., and Röhl A. Median-joining networks for inferring intraspecific phylogenies. Mol. Biol. Evol. 16 (1999) 37-48
5. Benjamini Y., and Hochberg Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. 57 (1995) 289-300
6. Berumen J., Ordonez R.M., Lazcano E., Salmeron J., Galvan S.C., Estrada R.A., Yunes E., Garcia-Carranca A., Gonzalez-Lira G., and Madrigal-de la Campa A. Asian-American variants of human papillomavirus 16 and risk for cervical cancer: a case-control study. J. Natl. Cancer Inst. 93 (2001) 1325-1330
7. Bhattacharjee B., and Sengupta S. HPV16 E2 gene disruption and polymorphisms of E2 and LCR: some significant associations with cervical cancer in Indian women. Gynecol. Oncol. 100 (2006) 372-378
8. Bhattacharjee B., and Sengupta S. CpG methylation of HPV 16 LCR at E2 binding site proximal to P97 is associated with cervical cancer in presence of intact E2. Virology 354 (2006) 280-285
9. Bhattacharya P., and Sengupta S. Predisposition to HPV16/18-related cervical cancer because of proline homozygosity at codon 72 of p53 among Indian women is influenced by HLA-B*07 and homozygosity of HLA-DQB1*03. Tissue Antigens 70 (2007) 283-293
10. Bosch F.X., Manos M.M., Munoz N., Sherman M., Jansen A., Peto J., Schiffman M., Moreno V., Kurman R., Shah K., and I. S. Group. Prevalence of human papillomavirus in cervical cancer: a worldwide perspective. J. Natl. Cancer Inst. 87 (1995) 796-802
11. Cargill M., Altshuler D., Ireland J., Sklar P., Ardlie K., Patil N., Shaw N., Lane C.R., Lim E.P., Kalyanaraman N., Nemesh J., Ziaugra L., Friedland L., Rolfe A., Warrington J., Lipshutz R., Daley G.Q., and Lander E.S. Characterization of single nucleotide polymorphisms in coding regions of human genes. Nat. Genet. 22 (1999) 231-238
12. Casas L., Galvan S.C., Ordonez R.M., Lopez N., Guido M., and Berumen J. Asian-American variants of human papillomavirus type 16 have extensive mutations in the E2 gene and are highly amplified in cervical carcinomas. Int. J. Cancer. 83 (1999) 449-455
13. Chen Z., Terai M., Fu L., Herrero R., DeSalle R., and Burk R.D. Diversifying selection in human papillomavirus type 16 lineages based on complete genome analyses. J. Virol. 79 (2005) 7014-7023
14. Cromme F.V., Meijer C.J., Snijders P.J., Uyterlinde A., Kenemans P., Helmerhorst T., Stern P.L., van den Brule A.J., and Walboomers J.M. Analysis of MHC class I and II expression in relation to presence of HPV genotypes in premalignant and malignant cervical lesions. Br. J. Cancer 67 (1993) 1372-1380
15. Das B.C., Gopalkrishna V., Hedau S., and Katiyar S. Cancer of the uterine cervix and human papillomavirus infection. Curr. Sci. 78 (2000) 52-63
16. Dillon S., Sasagawa T., Crawford A., Prestidge J., Inder M.K., Jerram J., Mercer A.A., and Hibma M.J. Resolution of cervical dysplasia is associated with T-cell proliferative responses to human papillomavirus type 16 E2. Gen. Virol. 88 (2007) 803-813
17. Doorbar J. Molecular biology of human papillomavirus infection and cervical cancer. Clin. Sci. 110 (2006) 525-541
18. Doorbar J., and Griffin H. Intrabody strategies for the treatment of human papillomavirus-associated disease. Exp. Opin. Biol. Ther. 7 (2007) 677-689
19. Dyson N., Howley P.M., Münger K., and Harlow E. The human papilloma virus-16 E7 oncoprotein is able to bind to the retinoblastoma gene product. Science 243 (1989) 934-937
20. Edmonds C., and Vousden K.H. A point mutational analysis of human papillomavirus type 16 E7 protein. J. Virol. 63 (1989) 2650-2656
21. Franceschi S., Rajkumar R., Snijders P.J.F., Arslan A., Mahé C., Plummer M., Sankaranarayanan R.R., Cherian J., Meijer C.J.L.M., and Weiderpass E. Papillomavirus infection in rural women in southern India. Br. J. Cancer 92 (2005) 601-606
22. Giannoudis A., Van Duin M., Snijders P.J.F., and Herrington C.S. Variation in the E2-binding domain of HPV 16 is associated with high-grade squamous intraepithelial lesions of the cervix. Br. J. Cancer. 84 (2001) 1058-1063
23. Hawley-Nelson P.K., Vousden H., Hubbert N.L., Lowy D.R., and Schiller J.T. HPV16 E6 and E7 proteins cooperate to immortalize human foreskin keratinocytes. EMBO J. 8 (1989) 3905-3910
24. Holmgren S.C., Patterson N.A., Ozbun M.A., and Lambert P.F. The minor capsid protein L2 contributes to two steps in the human papillomavirus type 31 life cycle. J. Virol. 79 (2005) 3938-3948
25. Kämmer C., Warthorst U., Torrez-Martinez N., Wheeler C.M., and Pfister H. Sequence analysis of the long control region of human papillomavirus type 16 variants and functional consequences for P97 promoter activity. J. Gen. Virol. 81 (2000) 1975-1981
26. Laikangbam P., Sengupta S., Bhattacharya P., Duttagupta C., Singh D., Verma Y., Roy S., Das R., and Mukhopadhyay S. A comparative profile of the prevalence and age distribution of human papillomavirus type 16/18 infections among three states of India with focus on northeast India. Int. J. Gynecol. Cancer 17 (2007) 107-117
27. Minkoff H., Feldman J., DeHovitz J., Landesman S., and Burk R.D. A longitudinal study of human papillomavirus carriage in human immuno-deficiency virus-infected and human immunodeficiency virus-uninfected women. Am. J. Obstet. Gynecol. 178 (1998) 982-986
28. Mirkin M.S. Expandable DNA repeats and human disease. Nature 447 (2007) 932-940
29. Münger K., Phelps W.C., Bubb V., Howley P.M., and Schlegel R. The E6 and E7 genes of the human papillomavirus type 16 together are necessary and sufficient for transformation of primary human keratinocytes. J. Virol. 63 (1989) 4417-4421
30. Munoz N., Bosch F.X., de Sanjose S., Herrero R., Castellsague X., Shah K.V., Snijders P.J., and Meijer C.J. Epidemiologic classification of human papillomavirus types associated with cervical cancer. N. Engl. J. Med. 348 (2003) 518-527
31. Myers G., Delius H., Icenogle J., Bernard H.U., Favre M., van Ranst M., and Wheeler C.M. Human papillomaviruses 1997: a compilation and analysis of nucleic acid and amino acid sequences. Theoretical Biology and Biophysics (1997), Los Alamos National Laboratory, Los Alamos, New Mexico
32. Nakahara T., Peh W.L., Doorbar J., Lee D., and Lambert P.F. Human papillomavirus type 16 E1^E4 contributes to multiple facets of the papillomavirus life cycle. J. Virol. 79 (2005) 13150-13165
33. Ng P.C., and Henikoff S. Predicting deleterious amino acid substitutions. Genome Res. 11 (2001) 863-874
34. Ordóñez R.M., Espinosa A.M., Sánchez-González D.J., Armendáriz-Borunda J., and Berumen J. Enhanced oncogenicity of Asian-American human papillomavirus 16 is associated with impaired E2 repression of E6/E7 oncogene transcription. J. Gen. Virol. 85 (2004) 1433-1444
35. Park J.-S., Kim E.-J., Kwon H.-J., Hwangi E.-S., Namkoong S.-E., and Um S.-J. Inactivation of interferon regulatory factor-1 tumor suppressor protein by HPV E7 oncoprotein. Implication for the E7-mediated immune evasion mechanism in cervical carcinogenesis. J Biol. Chem. 275 (2000) 6764-6769
36. Rector A., Lemey P., Tachezy R., Mostmans S., Ghim S.-J., Van Doorslaer K., Roelke M., Bush M., Montali R.J., Joslin J., Burk R.D., Jenson A.B., Sundberg J.P., Shapiro B., and Van Ranst M. Ancient papillomavirus-host co-speciation in Felidae. Genome Biol. 8 4 (2007) R57
37. Scheffner M., Werness B.A., Huibregtse J.M., Levine A.J., and Howley P.M. The E6 oncoprotein encoded by human papillomavirus types16 and 18 promotes the degradation of p53. Cell 63 (1990) 1129-1136
38. Schwarz E., Freese U.K., Gissman L., Mayer W., Roggenbuck B., Stremlau A., and zur Hausen H. Structure and transcription of human papillomavirus sequences in cervical carcinoma cells. Nature 314 (1985) 111-114
39. Sichero L., and Villa L.L. Epidemiological and functional implications of molecular variants of human papillomavirus. Braz. J. Med. Biol. Res. 39 6 (2006) 707-717
40. Singh R.K., Maulik S., Mitra S., Mondal R.K., Basu P.S., Roychowdhury S., and Panda C.K. Human papillomavirus prevalence in postradiotherapy uterine cervical carcinoma patients: correlation with recurrence of the disease. Int. J. Gynecol. Cancer. 6 (2006) 1048-1054
41. Sowjanya A.P., Jain M., Poli U.R., Padma S., Das M., Shah K.V., Rao B.N., Devi R.R., Gravitt P.E., and Ramakrishna G. Prevalence and distribution of high-risk human papilloma virus (HPV) types in invasive squamous cell carcinoma of the cervix and in normal women in Andhra Pradesh, India. BMC Infect Dis. 5 (2005) 116
42. Villa L.L., Sichero L., Rahal P., Caballero O., Ferenczy A., Rohan T., and Franco E.L. Molecular variants of human papillomavirus types 16 and 18 preferentially associated with cervical neoplasia. J. Gen. Virol. 81 (2000) 2959-2968
43. Yamada T., Manos M.M., Peto J., Greer C.E., Munoz N., Bosch F.X., and Wheeler C.M. Human papillomavirus type 16 sequence variation in cervical cancers: a worldwide perspective. J. Virol. 71 (1997) 2463-2472
44. Yang R., Wheeler C.M., Chen X., Uematsu S., Takeda K., Akira S., Pastrana D.V., Viscidi R.P., and Roden R.B.S. Papillomavirus capsid mutation to escape dendritic cell-dependent innate immunity in cervical cancer. J. Virol. 79 (2005) 6741-6750
45. Zhang B., Li P., Wang E., Brahmi Z., Dunn K.W., Blum J.S., and Roman A. The E5 protein of human papillomavirus type 16 perturbs MHC class II antigen maturation in human foreskin keratinocytes treated with interferon-gamma. Virology 310 (2003) 100-108
46. Zhu Y., Spitz M.R., Amos C.I., Lin J., Schabath M.B., and Wu X. An evolutionary perspective on single-nucleotide polymorphism screening in molecular cancer epidemiology. Cancer Res. 64 (2004) 2251-2257
47. zur Hausen H. Papillomavirus infections - a major cause of human cancers. Biochim. Biophys. Acta. 1288 (1996) F55-F78