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<p>Wild rodents remain underrepresented in papillomavirus genomics, limiting current understanding of host range, tissue tropism, and evolutionary diversity. Here, we report the first papillomavirus identified in the spotted lowland paca, <i>Cuniculus paca</i>, from the Brazilian Amazon, provisionally designated <i>Cuniculus paca</i> papillomavirus 1 (CpPV1). Histopathological examination supported the diagnosis of a virally induced squamous papilloma. Broad-range L1 PCR (FAP59/64), rolling-circle amplification, and Illumina MiSeq sequencing enabled recovery of a complete circular genome of 8,803&#xa0;bp containing the canonical early (E6, E7, E1, and E2) and late (L2 and L1) open reading frames, together with a typical long control region. Pairwise comparison of the complete L1 gene showed 63.10% nucleotide identity to <i>Erethizon dorsatum</i> papillomavirus 2 (EdPV2), well below the threshold used for papillomavirus type demarcation. Maximum-likelihood phylogenetic analysis recovered CpPV1 as a distinct lineage sister to EdPV2 within a broader, non-monophyletic rodent papillomavirus assemblage. This finding expands the known diversity of <i>Papillomaviridae</i> in Neotropical rodents and provides new insight into papillomavirus evolution in an under-sampled host group.</p> Graphical Abstract <p></p>

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Complete genome and phylogenetic characterization of a novel papillomavirus from Cuniculus paca in the Brazilian Amazon

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2026年5月7日

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  • Cleyton Silva de Araújo,
  • Laura Gabrielly Alves Henrique,
  • Hanna Gabriela da Silva Oliveira,
  • Jhonatan Henrique Lima da Rocha,
  • Junio Damasceno de Souza¹,
  • Agnes de Souza Lima,
  • Vania Maria França Ribeiro,
  • Francisco Carlos da Silva,
  • David Driemeier,
  • Cláudio Wageck Canal,
  • John Munday,
  • Felipe Masiero Salvarani,
  • Flavio Roberto Chaves da Silva,
  • Cíntia Daudt

摘要

Wild rodents remain underrepresented in papillomavirus genomics, limiting current understanding of host range, tissue tropism, and evolutionary diversity. Here, we report the first papillomavirus identified in the spotted lowland paca, Cuniculus paca, from the Brazilian Amazon, provisionally designated Cuniculus paca papillomavirus 1 (CpPV1). Histopathological examination supported the diagnosis of a virally induced squamous papilloma. Broad-range L1 PCR (FAP59/64), rolling-circle amplification, and Illumina MiSeq sequencing enabled recovery of a complete circular genome of 8,803 bp containing the canonical early (E6, E7, E1, and E2) and late (L2 and L1) open reading frames, together with a typical long control region. Pairwise comparison of the complete L1 gene showed 63.10% nucleotide identity to Erethizon dorsatum papillomavirus 2 (EdPV2), well below the threshold used for papillomavirus type demarcation. Maximum-likelihood phylogenetic analysis recovered CpPV1 as a distinct lineage sister to EdPV2 within a broader, non-monophyletic rodent papillomavirus assemblage. This finding expands the known diversity of Papillomaviridae in Neotropical rodents and provides new insight into papillomavirus evolution in an under-sampled host group.

Graphical Abstract