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<p>The giant panda (<i>Ailuropoda melanoleuca</i>) is a flagship species for biodiversity conservation, yet the viral communities inhabiting its upper respiratory tract (URT) remain poorly characterized. In this study, we performed viral metagenomic sequencing on 13 pooled libraries derived from 130 nasopharyngeal swabs collected from giant pandas between 2018 and 2021. The assembly yielded 16 complete or near-complete viral genomes, predominantly of DNA viruses belonging to the families <i>Papillomaviridae</i>, <i>Genomoviridae</i>, and <i>Parvoviridae</i>. Notably, we identified the complete genome of a novel Parvoviridae species within the subfamily <i>Densovirinae</i>. Phylogenetic analysis revealed that this virus clusters with invertebrate-infecting viruses, suggesting that it likely represents an arthropod-associated viral element derived from respiratory parasites rather than a direct vertebrate pathogen. Although the alpha diversity remained stable, beta diversity analysis revealed significant temporal shifts in viral community composition (P = 0.02). This study provides the first systematic characterization of the giant panda URT virome, establishing a critical baseline for disease surveillance and highlighting the complex interplay between the host and its environment-associated viral elements.</p>

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Viral metagenomic analysis of the upper respiratory tract virome and identification of novel viruses in giant pandas

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2026年4月23日

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  • Zidan Zeng,
  • Hongwen Zhang,
  • Shiyin Huang,
  • Yunli Li,
  • Yue Chen,
  • Shixing Yang,
  • Quan Shen,
  • Xiaochun Wang,
  • Yuwei Liu,
  • Ping Wu,
  • Likai Ji,
  • Songrui Liu,
  • Wen Zhang

摘要

The giant panda (Ailuropoda melanoleuca) is a flagship species for biodiversity conservation, yet the viral communities inhabiting its upper respiratory tract (URT) remain poorly characterized. In this study, we performed viral metagenomic sequencing on 13 pooled libraries derived from 130 nasopharyngeal swabs collected from giant pandas between 2018 and 2021. The assembly yielded 16 complete or near-complete viral genomes, predominantly of DNA viruses belonging to the families Papillomaviridae, Genomoviridae, and Parvoviridae. Notably, we identified the complete genome of a novel Parvoviridae species within the subfamily Densovirinae. Phylogenetic analysis revealed that this virus clusters with invertebrate-infecting viruses, suggesting that it likely represents an arthropod-associated viral element derived from respiratory parasites rather than a direct vertebrate pathogen. Although the alpha diversity remained stable, beta diversity analysis revealed significant temporal shifts in viral community composition (P = 0.02). This study provides the first systematic characterization of the giant panda URT virome, establishing a critical baseline for disease surveillance and highlighting the complex interplay between the host and its environment-associated viral elements.