Prevalence of human papillomavirus types and phylogenetic analysis of HPV-16 L1 variants from Southern India

Shama Prasada Kabekkodu, Samatha Bhat, Deeksha Pandey, Vinay Koshy Varghese, Vaibhav Shukla, Supriti Ghosh, Pralhad Kushtagi, Parvati Bhat, Puthiya Mundayat Gopinath, Kapaettu Satyamoorthy

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

Background: The human papillomavirus (HPV) and its variants show wide geographical distribution and have been reported to cause cervical lesions. With cervical neoplasia as the leading cancer in Indian women, the aim of the present study was to evaluate the multiple infection HPV type distribution and variant genotypes in cervical samples from the coastal Karnataka region, India. Materials and Methods: A total of 212 samples were screened by nested polymerase chain reaction using PGMY9/11 and GP5+/6+ primers. HPV positive samples were sequenced to identify the types and a phylogenetic tree was constructed using the neighbor-joining method. Results: Sequence analysis identified a total of 14 HPV types distributed in 20%, 73.3% and 82.5% of non-malignant, pre-malignant [low grade squamous intraepithelial lesion (LSIL) and high grade squamous intraepithelial lesion (HSIL)] and cervical cancer samples. The distribution of high risk HPV in cancer samples was HPV 16, 76.4%, HPV18, 11.7%, HPV81, 2.9%, HPV31, 1.4%, HPV35, 1.4% and HPV 45, 1.4%. Multiple infections were observed in 11.8% of tumor samples with HPV 16 contributing to 62.5% of cases. In non-malignant samples, 20% of HPV positive samples were detected with HPV16, 82.3%, HPV33, 5.8% and HPV58, 5.8% and very low incidence of multiple infections. Comparative phylogenetic analysis of HPV variants identified 9 HPV sequences as new papillomavirus species, predominantly classified as European lineage type. Conclusions: The findings for HPV infections associated with progression of cervical cancer in coastal Karnataka region and HPV variant analysis provide baseline data for prevention and HPV vaccination programs.

Original languageEnglish
Pages (from-to)2073-2080
Number of pages8
JournalAsian Pacific Journal of Cancer Prevention
Volume16
Issue number5
DOIs
Publication statusPublished - 2015

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Human papillomavirus 16
India
Papillomavirus Infections
Uterine Cervical Neoplasms
Neoplasms
Infection
Sequence Analysis
Vaccination
Genotype

All Science Journal Classification (ASJC) codes

  • Epidemiology
  • Oncology
  • Public Health, Environmental and Occupational Health
  • Cancer Research

Cite this

@article{2ea39d013d6344afbf1d3b6b6e283b8d,
title = "Prevalence of human papillomavirus types and phylogenetic analysis of HPV-16 L1 variants from Southern India",
abstract = "Background: The human papillomavirus (HPV) and its variants show wide geographical distribution and have been reported to cause cervical lesions. With cervical neoplasia as the leading cancer in Indian women, the aim of the present study was to evaluate the multiple infection HPV type distribution and variant genotypes in cervical samples from the coastal Karnataka region, India. Materials and Methods: A total of 212 samples were screened by nested polymerase chain reaction using PGMY9/11 and GP5+/6+ primers. HPV positive samples were sequenced to identify the types and a phylogenetic tree was constructed using the neighbor-joining method. Results: Sequence analysis identified a total of 14 HPV types distributed in 20{\%}, 73.3{\%} and 82.5{\%} of non-malignant, pre-malignant [low grade squamous intraepithelial lesion (LSIL) and high grade squamous intraepithelial lesion (HSIL)] and cervical cancer samples. The distribution of high risk HPV in cancer samples was HPV 16, 76.4{\%}, HPV18, 11.7{\%}, HPV81, 2.9{\%}, HPV31, 1.4{\%}, HPV35, 1.4{\%} and HPV 45, 1.4{\%}. Multiple infections were observed in 11.8{\%} of tumor samples with HPV 16 contributing to 62.5{\%} of cases. In non-malignant samples, 20{\%} of HPV positive samples were detected with HPV16, 82.3{\%}, HPV33, 5.8{\%} and HPV58, 5.8{\%} and very low incidence of multiple infections. Comparative phylogenetic analysis of HPV variants identified 9 HPV sequences as new papillomavirus species, predominantly classified as European lineage type. Conclusions: The findings for HPV infections associated with progression of cervical cancer in coastal Karnataka region and HPV variant analysis provide baseline data for prevention and HPV vaccination programs.",
author = "Kabekkodu, {Shama Prasada} and Samatha Bhat and Deeksha Pandey and Varghese, {Vinay Koshy} and Vaibhav Shukla and Supriti Ghosh and Pralhad Kushtagi and Parvati Bhat and Gopinath, {Puthiya Mundayat} and Kapaettu Satyamoorthy",
year = "2015",
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language = "English",
volume = "16",
pages = "2073--2080",
journal = "Asian Pacific Journal of Cancer Prevention",
issn = "1513-7368",
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}

Prevalence of human papillomavirus types and phylogenetic analysis of HPV-16 L1 variants from Southern India. / Kabekkodu, Shama Prasada; Bhat, Samatha; Pandey, Deeksha; Varghese, Vinay Koshy; Shukla, Vaibhav; Ghosh, Supriti; Kushtagi, Pralhad; Bhat, Parvati; Gopinath, Puthiya Mundayat; Satyamoorthy, Kapaettu.

In: Asian Pacific Journal of Cancer Prevention, Vol. 16, No. 5, 2015, p. 2073-2080.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Prevalence of human papillomavirus types and phylogenetic analysis of HPV-16 L1 variants from Southern India

AU - Kabekkodu, Shama Prasada

AU - Bhat, Samatha

AU - Pandey, Deeksha

AU - Varghese, Vinay Koshy

AU - Shukla, Vaibhav

AU - Ghosh, Supriti

AU - Kushtagi, Pralhad

AU - Bhat, Parvati

AU - Gopinath, Puthiya Mundayat

AU - Satyamoorthy, Kapaettu

PY - 2015

Y1 - 2015

N2 - Background: The human papillomavirus (HPV) and its variants show wide geographical distribution and have been reported to cause cervical lesions. With cervical neoplasia as the leading cancer in Indian women, the aim of the present study was to evaluate the multiple infection HPV type distribution and variant genotypes in cervical samples from the coastal Karnataka region, India. Materials and Methods: A total of 212 samples were screened by nested polymerase chain reaction using PGMY9/11 and GP5+/6+ primers. HPV positive samples were sequenced to identify the types and a phylogenetic tree was constructed using the neighbor-joining method. Results: Sequence analysis identified a total of 14 HPV types distributed in 20%, 73.3% and 82.5% of non-malignant, pre-malignant [low grade squamous intraepithelial lesion (LSIL) and high grade squamous intraepithelial lesion (HSIL)] and cervical cancer samples. The distribution of high risk HPV in cancer samples was HPV 16, 76.4%, HPV18, 11.7%, HPV81, 2.9%, HPV31, 1.4%, HPV35, 1.4% and HPV 45, 1.4%. Multiple infections were observed in 11.8% of tumor samples with HPV 16 contributing to 62.5% of cases. In non-malignant samples, 20% of HPV positive samples were detected with HPV16, 82.3%, HPV33, 5.8% and HPV58, 5.8% and very low incidence of multiple infections. Comparative phylogenetic analysis of HPV variants identified 9 HPV sequences as new papillomavirus species, predominantly classified as European lineage type. Conclusions: The findings for HPV infections associated with progression of cervical cancer in coastal Karnataka region and HPV variant analysis provide baseline data for prevention and HPV vaccination programs.

AB - Background: The human papillomavirus (HPV) and its variants show wide geographical distribution and have been reported to cause cervical lesions. With cervical neoplasia as the leading cancer in Indian women, the aim of the present study was to evaluate the multiple infection HPV type distribution and variant genotypes in cervical samples from the coastal Karnataka region, India. Materials and Methods: A total of 212 samples were screened by nested polymerase chain reaction using PGMY9/11 and GP5+/6+ primers. HPV positive samples were sequenced to identify the types and a phylogenetic tree was constructed using the neighbor-joining method. Results: Sequence analysis identified a total of 14 HPV types distributed in 20%, 73.3% and 82.5% of non-malignant, pre-malignant [low grade squamous intraepithelial lesion (LSIL) and high grade squamous intraepithelial lesion (HSIL)] and cervical cancer samples. The distribution of high risk HPV in cancer samples was HPV 16, 76.4%, HPV18, 11.7%, HPV81, 2.9%, HPV31, 1.4%, HPV35, 1.4% and HPV 45, 1.4%. Multiple infections were observed in 11.8% of tumor samples with HPV 16 contributing to 62.5% of cases. In non-malignant samples, 20% of HPV positive samples were detected with HPV16, 82.3%, HPV33, 5.8% and HPV58, 5.8% and very low incidence of multiple infections. Comparative phylogenetic analysis of HPV variants identified 9 HPV sequences as new papillomavirus species, predominantly classified as European lineage type. Conclusions: The findings for HPV infections associated with progression of cervical cancer in coastal Karnataka region and HPV variant analysis provide baseline data for prevention and HPV vaccination programs.

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U2 - 10.7314/APJCP.2015.16.5.2073

DO - 10.7314/APJCP.2015.16.5.2073

M3 - Article

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EP - 2080

JO - Asian Pacific Journal of Cancer Prevention

JF - Asian Pacific Journal of Cancer Prevention

SN - 1513-7368

IS - 5

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