Whole genome sequencing and evolutionary analysis of human papillomavirus type 16 in central China.

PloS One
Min SunYang Ke

Abstract

Human papillomavirus type 16 plays a critical role in the neoplastic transformation of cervical cancers. Molecular variants of HPV16 existing in different ethnic groups have shown substantial phenotypic differences in pathogenicity, immunogenicity and tumorigenicity. In this study, we sequenced the entire HPV16 genome of 76 isolates originated from Anyang, central China. Phylogenetic analysis of these sequences identified two major variants of HPV16 in the Anyang area, namely the European prototype (E(p)) and the European Asian type (E(As)). These two variants show a high degree of divergence between groups, and the E(p) comprised higher genetic diversity than the E(As). Analysis with two measurements of genetic diversity indicated that viral population size was relatively stable in this area in the past. Codon based likelihood models revealed strong statistical support for adaptive evolution acting on the E6 gene. Bayesian analysis identified several important amino acid positions that may be driving adaptive selection in the HPV 16 population, including R10G, D25E, L83V, and E113D in the E6 gene. We hypothesize that the positive selection at these codons might be a contributing factor responsible for the phenotypic difference...Continue Reading

References

Mar 15, 1979·Journal of Molecular Evolution·T MiyataT Yasunaga
Apr 1, 1975·Theoretical Population Biology·G A Watterson
Sep 30, 1991·International Journal of Cancer. Journal International Du Cancer·A HildesheimW E Rawls
Aug 1, 1985·Virology·K SeedorfW G Röwekamp
Feb 1, 1974·Genetical Research·J M Smith, J Haigh
Nov 1, 1996·The Journal of Infectious Diseases·J J CarterD A Galloway
Jan 1, 1998·The Veterinary Journal·D Onions
Nov 24, 1999·Molecular Biology and Evolution·Y Suzuki, T Gojobori
May 8, 2000·International Journal of Cancer. Journal International Du Cancer·A L StephenB R Rose
Feb 22, 2001·Journal of the National Cancer Institute·A HildesheimR D Burk
Mar 10, 2001·The Journal of Pathology·A Giannoudis, C S Herrington
Apr 11, 2001·International Journal of Gynecological Pathology : Official Journal of the International Society of Gynecological Pathologists·S RiethdorfT W Park
Feb 21, 2002·Cell·Paul M Sharp
Aug 27, 2002·European Journal of Cancer Prevention : the Official Journal of the European Cancer Prevention Organisation (ECP)·R MedeirosC Lopes
Aug 27, 2002·The Journal of Infectious Diseases·Paul K S ChanAugustine F Cheng
Jan 31, 2003·British Journal of Cancer·G M CliffordS Franceschi
Feb 7, 2003·The New England Journal of Medicine·Nubia MuñozUNKNOWN International Agency for Research on Cancer Multicenter Cervical Cancer Study Group
Feb 26, 2003·Journal of Medical Virology·María Alejandra PicconiAngélica Teyssié
Aug 15, 2003·International Journal of Cancer. Journal International Du Cancer·Koji MatsumotoYuji Taketani
Oct 8, 2003·Systematic Biology·Stéphane Guindon, Olivier Gascuel
Mar 23, 2004·Nucleic Acids Research·Robert C Edgar
Jun 9, 2004·Virology·Ethel-Michele de VilliersHarald zur Hausen
Jun 16, 2004·International Journal of Cancer. Journal International Du Cancer·Nubia MuñozChris J L M Meijer
Aug 27, 2004·Molecular Biology and Evolution·Yun-Huei TzengWen-Hsiung Li
Sep 24, 2004·Journal of Molecular Evolution·Yoshiyuki Suzuki
Jan 27, 2005·International Journal of Gynecological Cancer : Official Journal of the International Gynecological Cancer Society·S KangH P Lee
Feb 4, 2005·Molecular Biology and Evolution·Ziheng YangRasmus Nielsen
Apr 16, 2005·The Lancet Oncology·Vincent CoglianoUNKNOWN WHO International Agency for Research on Cancer
Sep 27, 2005·Trends in Microbiology·Santiago García-VallvéIgnacio G Bravo

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Citations

Sep 18, 2013·Epidemiology and Infection·Y H Li, S P Chen
Feb 2, 2016·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Gianguglielmo ZehenderElisabetta Tanzi
Apr 17, 2013·Journal of Medical Virology·Azumi IshizakiHiroshi Ichimura
Sep 4, 2013·Virology·Robert D BurkZigui Chen
Jul 15, 2015·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Cristina Mendes de OliveiraJosé Eduardo Levi
Jul 14, 2017·Journal of Virology·Pascal van der WeeleAudrey J King
Aug 20, 2016·Infectious Agents and Cancer·Hongchang HeRenfu Shao

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Methods Mentioned

BETA
PCR
electrophoresis

Software Mentioned

MUSCLE
PAML
PhyML
CODEML
SUMTREES

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