Identification of human papillomavirus type 58 lineages and the distribution worldwide

Paul K S Chan, Alfred C S Luk, Jong Sup Park, Karen K. Smith-McCune, Joel M. Palefsky, Ryo Konno, Lucia Giovannelli, Francois Coutlée, Samantha Hibbitts, Tang Yuan Chu, Wannapa Settheetham-Ishida, María Alejandra Picconi, Annabelle Ferrera, Federico De Marco, Yin Ling Woo, Tainá Raiol, Patricia Piña-Sánchez, Jo L K Cheung, Jeong Hoon Bae, Mike Z. ChirenjeTsitsi Magure, Anna Barbara Moscicki, Alison N. Fiander, Rosa Di Stefano, Tak Hong Cheung, May M Y Yu, Stephen K W Tsui, David Pim, Lawrence Banks

Research output: Contribution to journalArticle

35 Citations (Scopus)

Abstract

Background. Human papillomavirus type 58 (HPV-58) accounts for a much higher proportion of cervical cancers in East Asia than other types. A classification system of HPV-58, which is essential for molecular epidemiological study, is lacking. Methods and results. This study analyzed the sequences of 401 isolates collected from 15 countries and cities. The 268 unique concatenated E6-E7-E2-E5-L1-LCR sequences that comprised 57% of the whole HPV-58 genome showed 4 distinct clusters. L1 and LCR produced tree topologies that best resembled the concatenated sequences and thus are the most appropriate surrogate regions for lineage classification. Moreover, short fragments from L1 (nucleotides 6014-6539) and LCR (nucleotides 7257-7429 and 7540-52) were found to contain sequence signatures informative for lineage identification. Lineage A was the most prevalent lineage across all regions. Lineage C was more frequent in Africa than elsewhere, whereas lineage D was more prevalent in Africa than in Asia. Among lineage A variants, sublineage A2 dominated in Africa, the Americas, and Europe, but not in Asia. Sublineage A1, which represents the prototype that originated from a patient with cancer, was rare worldwide except in Asia. Conclusions. HPV-58 can be classified into 4 lineages that show some degree of ethnogeographic predilection in distribution. The evolutionary, epidemiological, and pathological characteristics of these lineages warrant further study.

Original languageEnglish
Pages (from-to)1565-1573
Number of pages9
JournalJournal of Infectious Diseases
Volume203
Issue number11
DOIs
Publication statusPublished - Jun 1 2011

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ASJC Scopus subject areas

  • Infectious Diseases
  • Immunology and Allergy

Cite this

Chan, P. K. S., Luk, A. C. S., Park, J. S., Smith-McCune, K. K., Palefsky, J. M., Konno, R., ... Banks, L. (2011). Identification of human papillomavirus type 58 lineages and the distribution worldwide. Journal of Infectious Diseases, 203(11), 1565-1573. https://doi.org/10.1093/infdis/jir157

Identification of human papillomavirus type 58 lineages and the distribution worldwide. / Chan, Paul K S; Luk, Alfred C S; Park, Jong Sup; Smith-McCune, Karen K.; Palefsky, Joel M.; Konno, Ryo; Giovannelli, Lucia; Coutlée, Francois; Hibbitts, Samantha; Chu, Tang Yuan; Settheetham-Ishida, Wannapa; Picconi, María Alejandra; Ferrera, Annabelle; De Marco, Federico; Woo, Yin Ling; Raiol, Tainá; Piña-Sánchez, Patricia; Cheung, Jo L K; Bae, Jeong Hoon; Chirenje, Mike Z.; Magure, Tsitsi; Moscicki, Anna Barbara; Fiander, Alison N.; Stefano, Rosa Di; Cheung, Tak Hong; Yu, May M Y; Tsui, Stephen K W; Pim, David; Banks, Lawrence.

In: Journal of Infectious Diseases, Vol. 203, No. 11, 01.06.2011, p. 1565-1573.

Research output: Contribution to journalArticle

Chan, PKS, Luk, ACS, Park, JS, Smith-McCune, KK, Palefsky, JM, Konno, R, Giovannelli, L, Coutlée, F, Hibbitts, S, Chu, TY, Settheetham-Ishida, W, Picconi, MA, Ferrera, A, De Marco, F, Woo, YL, Raiol, T, Piña-Sánchez, P, Cheung, JLK, Bae, JH, Chirenje, MZ, Magure, T, Moscicki, AB, Fiander, AN, Stefano, RD, Cheung, TH, Yu, MMY, Tsui, SKW, Pim, D & Banks, L 2011, 'Identification of human papillomavirus type 58 lineages and the distribution worldwide', Journal of Infectious Diseases, vol. 203, no. 11, pp. 1565-1573. https://doi.org/10.1093/infdis/jir157
Chan PKS, Luk ACS, Park JS, Smith-McCune KK, Palefsky JM, Konno R et al. Identification of human papillomavirus type 58 lineages and the distribution worldwide. Journal of Infectious Diseases. 2011 Jun 1;203(11):1565-1573. https://doi.org/10.1093/infdis/jir157
Chan, Paul K S ; Luk, Alfred C S ; Park, Jong Sup ; Smith-McCune, Karen K. ; Palefsky, Joel M. ; Konno, Ryo ; Giovannelli, Lucia ; Coutlée, Francois ; Hibbitts, Samantha ; Chu, Tang Yuan ; Settheetham-Ishida, Wannapa ; Picconi, María Alejandra ; Ferrera, Annabelle ; De Marco, Federico ; Woo, Yin Ling ; Raiol, Tainá ; Piña-Sánchez, Patricia ; Cheung, Jo L K ; Bae, Jeong Hoon ; Chirenje, Mike Z. ; Magure, Tsitsi ; Moscicki, Anna Barbara ; Fiander, Alison N. ; Stefano, Rosa Di ; Cheung, Tak Hong ; Yu, May M Y ; Tsui, Stephen K W ; Pim, David ; Banks, Lawrence. / Identification of human papillomavirus type 58 lineages and the distribution worldwide. In: Journal of Infectious Diseases. 2011 ; Vol. 203, No. 11. pp. 1565-1573.
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title = "Identification of human papillomavirus type 58 lineages and the distribution worldwide",
abstract = "Background. Human papillomavirus type 58 (HPV-58) accounts for a much higher proportion of cervical cancers in East Asia than other types. A classification system of HPV-58, which is essential for molecular epidemiological study, is lacking. Methods and results. This study analyzed the sequences of 401 isolates collected from 15 countries and cities. The 268 unique concatenated E6-E7-E2-E5-L1-LCR sequences that comprised 57{\%} of the whole HPV-58 genome showed 4 distinct clusters. L1 and LCR produced tree topologies that best resembled the concatenated sequences and thus are the most appropriate surrogate regions for lineage classification. Moreover, short fragments from L1 (nucleotides 6014-6539) and LCR (nucleotides 7257-7429 and 7540-52) were found to contain sequence signatures informative for lineage identification. Lineage A was the most prevalent lineage across all regions. Lineage C was more frequent in Africa than elsewhere, whereas lineage D was more prevalent in Africa than in Asia. Among lineage A variants, sublineage A2 dominated in Africa, the Americas, and Europe, but not in Asia. Sublineage A1, which represents the prototype that originated from a patient with cancer, was rare worldwide except in Asia. Conclusions. HPV-58 can be classified into 4 lineages that show some degree of ethnogeographic predilection in distribution. The evolutionary, epidemiological, and pathological characteristics of these lineages warrant further study.",
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T1 - Identification of human papillomavirus type 58 lineages and the distribution worldwide

AU - Chan, Paul K S

AU - Luk, Alfred C S

AU - Park, Jong Sup

AU - Smith-McCune, Karen K.

AU - Palefsky, Joel M.

AU - Konno, Ryo

AU - Giovannelli, Lucia

AU - Coutlée, Francois

AU - Hibbitts, Samantha

AU - Chu, Tang Yuan

AU - Settheetham-Ishida, Wannapa

AU - Picconi, María Alejandra

AU - Ferrera, Annabelle

AU - De Marco, Federico

AU - Woo, Yin Ling

AU - Raiol, Tainá

AU - Piña-Sánchez, Patricia

AU - Cheung, Jo L K

AU - Bae, Jeong Hoon

AU - Chirenje, Mike Z.

AU - Magure, Tsitsi

AU - Moscicki, Anna Barbara

AU - Fiander, Alison N.

AU - Stefano, Rosa Di

AU - Cheung, Tak Hong

AU - Yu, May M Y

AU - Tsui, Stephen K W

AU - Pim, David

AU - Banks, Lawrence

PY - 2011/6/1

Y1 - 2011/6/1

N2 - Background. Human papillomavirus type 58 (HPV-58) accounts for a much higher proportion of cervical cancers in East Asia than other types. A classification system of HPV-58, which is essential for molecular epidemiological study, is lacking. Methods and results. This study analyzed the sequences of 401 isolates collected from 15 countries and cities. The 268 unique concatenated E6-E7-E2-E5-L1-LCR sequences that comprised 57% of the whole HPV-58 genome showed 4 distinct clusters. L1 and LCR produced tree topologies that best resembled the concatenated sequences and thus are the most appropriate surrogate regions for lineage classification. Moreover, short fragments from L1 (nucleotides 6014-6539) and LCR (nucleotides 7257-7429 and 7540-52) were found to contain sequence signatures informative for lineage identification. Lineage A was the most prevalent lineage across all regions. Lineage C was more frequent in Africa than elsewhere, whereas lineage D was more prevalent in Africa than in Asia. Among lineage A variants, sublineage A2 dominated in Africa, the Americas, and Europe, but not in Asia. Sublineage A1, which represents the prototype that originated from a patient with cancer, was rare worldwide except in Asia. Conclusions. HPV-58 can be classified into 4 lineages that show some degree of ethnogeographic predilection in distribution. The evolutionary, epidemiological, and pathological characteristics of these lineages warrant further study.

AB - Background. Human papillomavirus type 58 (HPV-58) accounts for a much higher proportion of cervical cancers in East Asia than other types. A classification system of HPV-58, which is essential for molecular epidemiological study, is lacking. Methods and results. This study analyzed the sequences of 401 isolates collected from 15 countries and cities. The 268 unique concatenated E6-E7-E2-E5-L1-LCR sequences that comprised 57% of the whole HPV-58 genome showed 4 distinct clusters. L1 and LCR produced tree topologies that best resembled the concatenated sequences and thus are the most appropriate surrogate regions for lineage classification. Moreover, short fragments from L1 (nucleotides 6014-6539) and LCR (nucleotides 7257-7429 and 7540-52) were found to contain sequence signatures informative for lineage identification. Lineage A was the most prevalent lineage across all regions. Lineage C was more frequent in Africa than elsewhere, whereas lineage D was more prevalent in Africa than in Asia. Among lineage A variants, sublineage A2 dominated in Africa, the Americas, and Europe, but not in Asia. Sublineage A1, which represents the prototype that originated from a patient with cancer, was rare worldwide except in Asia. Conclusions. HPV-58 can be classified into 4 lineages that show some degree of ethnogeographic predilection in distribution. The evolutionary, epidemiological, and pathological characteristics of these lineages warrant further study.

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