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. 1996 Apr;34(4):802–809. doi: 10.1128/jcm.34.4.802-809.1996

Human papillomavirus type 70 genome cloned from overlapping PCR products: complete nucleotide sequence and genomic organization.

O Forslund 1, B G Hansson 1
PMCID: PMC228896  PMID: 8815087

Abstract

The genome of human papillomavirus (HPV) type 70 (HPV 70), isolated from a cervical condyloma, was obtained by cloning overlapping PCR products. By automated DNA sequence analysis, the genome was found to consist of 7,905 bp with a G + C content of 40%. The genomic organization showed the characteristic features shared by other sequenced HPVs. Nucleotide sequence comparison with previously known HPV types demonstrated the closest homology with HPV 68 (82%), HPV 39 (82%), HPV 18 (70%), HPV 45 (70%), and HPV 59 (70%). Comparison with seven other partially sequenced HPV 70 isolates showed homologies of between 100 and 99.5%. Cloning of overlapping PCR products and automated DNA sequence analysis was found to be a feasible method of obtaining full-length sequences of HPVs.

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Barnes W. M. PCR amplification of up to 35-kb DNA with high fidelity and high yield from lambda bacteriophage templates. Proc Natl Acad Sci U S A. 1994 Mar 15;91(6):2216–2220. doi: 10.1073/pnas.91.6.2216. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Barnes W. M. Plasmid detection and sizing in single colony lysates. Science. 1977 Jan 28;195(4276):393–394. doi: 10.1126/science.318764. [DOI] [PubMed] [Google Scholar]
  3. Chan S. Y., Bernard H. U., Ong C. K., Chan S. P., Hofmann B., Delius H. Phylogenetic analysis of 48 papillomavirus types and 28 subtypes and variants: a showcase for the molecular evolution of DNA viruses. J Virol. 1992 Oct;66(10):5714–5725. doi: 10.1128/jvi.66.10.5714-5725.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Chan W. K., Klock G., Bernard H. U. Progesterone and glucocorticoid response elements occur in the long control regions of several human papillomaviruses involved in anogenital neoplasia. J Virol. 1989 Aug;63(8):3261–3269. doi: 10.1128/jvi.63.8.3261-3269.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Chen E. Y., Howley P. M., Levinson A. D., Seeburg P. H. The primary structure and genetic organization of the bovine papillomavirus type 1 genome. Nature. 1982 Oct 7;299(5883):529–534. doi: 10.1038/299529a0. [DOI] [PubMed] [Google Scholar]
  6. Cheng S., Chang S. Y., Gravitt P., Respess R. Long PCR. Nature. 1994 Jun 23;369(6482):684–685. doi: 10.1038/369684a0. [DOI] [PubMed] [Google Scholar]
  7. Cheng S., Fockler C., Barnes W. M., Higuchi R. Effective amplification of long targets from cloned inserts and human genomic DNA. Proc Natl Acad Sci U S A. 1994 Jun 7;91(12):5695–5699. doi: 10.1073/pnas.91.12.5695. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Cheng S., Higuchi R., Stoneking M. Complete mitochondrial genome amplification. Nat Genet. 1994 Jul;7(3):350–351. doi: 10.1038/ng0794-350. [DOI] [PubMed] [Google Scholar]
  9. Cole S. T., Danos O. Nucleotide sequence and comparative analysis of the human papillomavirus type 18 genome. Phylogeny of papillomaviruses and repeated structure of the E6 and E7 gene products. J Mol Biol. 1987 Feb 20;193(4):599–608. doi: 10.1016/0022-2836(87)90343-3. [DOI] [PubMed] [Google Scholar]
  10. Danos O., Katinka M., Yaniv M. Human papillomavirus 1a complete DNA sequence: a novel type of genome organization among papovaviridae. EMBO J. 1982;1(2):231–236. doi: 10.1002/j.1460-2075.1982.tb01152.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Dower W. J., Miller J. F., Ragsdale C. W. High efficiency transformation of E. coli by high voltage electroporation. Nucleic Acids Res. 1988 Jul 11;16(13):6127–6145. doi: 10.1093/nar/16.13.6127. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Eckert K. A., Kunkel T. A. DNA polymerase fidelity and the polymerase chain reaction. PCR Methods Appl. 1991 Aug;1(1):17–24. doi: 10.1101/gr.1.1.17. [DOI] [PubMed] [Google Scholar]
  13. Evans R. M., Hollenberg S. M. Zinc fingers: gilt by association. Cell. 1988 Jan 15;52(1):1–3. doi: 10.1016/0092-8674(88)90522-3. [DOI] [PubMed] [Google Scholar]
  14. Forslund O., Hansson B. G., Bjerre B. Typing of human papillomaviruses by consensus polymerase chain reaction and a non-radioactive reverse dot blot hybridization. J Virol Methods. 1994 Sep;49(2):129–139. doi: 10.1016/0166-0934(94)90037-x. [DOI] [PubMed] [Google Scholar]
  15. Forslund O., Hansson B. G., Rymark P., Bjerre B. Human papillomavirus DNA in urine samples compared with that in simultaneously collected urethra and cervix samples. J Clin Microbiol. 1993 Aug;31(8):1975–1979. doi: 10.1128/jcm.31.8.1975-1979.1993. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Heilman C. A., Law M. F., Israel M. A., Howley P. M. Cloning of human papilloma virus genomic DNAs and analysis of homologous polynucleotide sequences. J Virol. 1980 Nov;36(2):395–407. doi: 10.1128/jvi.36.2.395-407.1980. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Henikoff S. Unidirectional digestion with exonuclease III creates targeted breakpoints for DNA sequencing. Gene. 1984 Jun;28(3):351–359. doi: 10.1016/0378-1119(84)90153-7. [DOI] [PubMed] [Google Scholar]
  18. Iwamoto A., Yoshikawa H., Kitagawa K., Igarashi H., Kawana T., Yoshikura H. Short sequence in L1 region of human papillomaviruses correlates with clinical pictures and grouping by cross-hybridization. Jpn J Cancer Res. 1992 Apr;83(4):315–319. doi: 10.1111/j.1349-7006.1992.tb00107.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Longuet M., Beaudenon S., Orth G. Two novel genital human papillomavirus (HPV) types, HPV68 and HPV70, related to the potentially oncogenic HPV39. J Clin Microbiol. 1996 Mar;34(3):738–744. doi: 10.1128/jcm.34.3.738-744.1996. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Ong C. K., Bernard H. U., Villa L. L. Identification of genomic sequences of three novel human papillomavirus sequences in cervical smears of Amazonian Indians. J Infect Dis. 1994 Nov;170(5):1086–1088. doi: 10.1093/infdis/170.5.1086. [DOI] [PubMed] [Google Scholar]
  21. Orth G., Favre M., Croissant O. Characterization of a new type of human papillomavirus that causes skin warts. J Virol. 1977 Oct;24(1):108–120. doi: 10.1128/jvi.24.1.108-120.1977. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Peyton C. L., Wheeler C. M. Identification of five novel human papillomavirus sequences in the New Mexico triethnic population. J Infect Dis. 1994 Nov;170(5):1089–1092. doi: 10.1093/infdis/170.5.1089. [DOI] [PubMed] [Google Scholar]
  23. Rho J., Roy-Burman A., Kim H., de Villiers E. M., Matsukura T., Choe J. Nucleotide sequence and phylogenetic classification of human papillomavirus type 59. Virology. 1994 Aug 15;203(1):158–161. doi: 10.1006/viro.1994.1467. [DOI] [PubMed] [Google Scholar]
  24. Rymark P., Forslund O., Hansson B. G., Lindholm K. Genital HPV infection not a local but a regional infection: experience from a female teenage group. Genitourin Med. 1993 Feb;69(1):18–22. doi: 10.1136/sti.69.1.18. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Saiki R. K., Gelfand D. H., Stoffel S., Scharf S. J., Higuchi R., Horn G. T., Mullis K. B., Erlich H. A. Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science. 1988 Jan 29;239(4839):487–491. doi: 10.1126/science.2448875. [DOI] [PubMed] [Google Scholar]
  26. Schiffman M. H. Epidemiology of cervical human papillomavirus infections. Curr Top Microbiol Immunol. 1994;186:55–81. doi: 10.1007/978-3-642-78487-3_4. [DOI] [PubMed] [Google Scholar]
  27. Smits H. L., Tieben L. M., Tjong-A-Hung S. P., Jebbink M. F., Minnaar R. P., Jansen C. L., ter Schegget J. Detection and typing of human papillomaviruses present in fixed and stained archival cervical smears by a consensus polymerase chain reaction and direct sequence analysis allow the identification of a broad spectrum of human papillomavirus types. J Gen Virol. 1992 Dec;73(Pt 12):3263–3268. doi: 10.1099/0022-1317-73-12-3263. [DOI] [PubMed] [Google Scholar]
  28. Spalholz B. A., Yang Y. C., Howley P. M. Transactivation of a bovine papilloma virus transcriptional regulatory element by the E2 gene product. Cell. 1985 Aug;42(1):183–191. doi: 10.1016/s0092-8674(85)80114-8. [DOI] [PubMed] [Google Scholar]
  29. Stewart A. C., Gravitt P. E., Cheng S., Wheeler C. M. Generation of entire human papillomavirus genomes by long PCR: frequency of errors produced during amplification. Genome Res. 1995 Aug;5(1):79–88. doi: 10.1101/gr.5.1.79. [DOI] [PubMed] [Google Scholar]
  30. Tachezy R., Van Ranst M. A., Cruz Y., Burk R. D. Analysis of short novel human papillomavirus sequences. Biochem Biophys Res Commun. 1994 Oct 28;204(2):820–827. doi: 10.1006/bbrc.1994.2533. [DOI] [PubMed] [Google Scholar]
  31. Turek L. P. The structure, function, and regulation of papillomaviral genes in infection and cervical cancer. Adv Virus Res. 1994;44:305–356. doi: 10.1016/s0065-3527(08)60332-2. [DOI] [PubMed] [Google Scholar]
  32. Van Ranst M., Kaplan J. B., Burk R. D. Phylogenetic classification of human papillomaviruses: correlation with clinical manifestations. J Gen Virol. 1992 Oct;73(Pt 10):2653–2660. doi: 10.1099/0022-1317-73-10-2653. [DOI] [PubMed] [Google Scholar]
  33. Volpers C., Streeck R. E. Genome organization and nucleotide sequence of human papillomavirus type 39. Virology. 1991 Mar;181(1):419–423. doi: 10.1016/0042-6822(91)90518-g. [DOI] [PubMed] [Google Scholar]
  34. Wingender E. Compilation of transcription regulating proteins. Nucleic Acids Res. 1988 Mar 25;16(5):1879–1902. doi: 10.1093/nar/16.5.1879. [DOI] [PMC free article] [PubMed] [Google Scholar]
  35. de Villiers E. M. Heterogeneity of the human papillomavirus group. J Virol. 1989 Nov;63(11):4898–4903. doi: 10.1128/jvi.63.11.4898-4903.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. de Villiers E. M. Human pathogenic papillomavirus types: an update. Curr Top Microbiol Immunol. 1994;186:1–12. doi: 10.1007/978-3-642-78487-3_1. [DOI] [PubMed] [Google Scholar]
  37. zur Hausen H., de Villiers E. M. Human papillomaviruses. Annu Rev Microbiol. 1994;48:427–447. doi: 10.1146/annurev.mi.48.100194.002235. [DOI] [PubMed] [Google Scholar]

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