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Complete genome sequence of Paris polyphylla chlorotic mottle virus infecting Paris polyphylla var. yunnanensis in southwest China

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Abstract

A novel virus infecting a Paris polyphylla var. yunnanensis plant, tentatively named "Paris polyphylla chlorotic mottle virus" (PpCMV), was discovered in the city of Lijiang, Yunnan Province, China. Its genome consists of 6384 nucleotides (nt), excluding the 3′-terminal poly(A) tail, and contains two open reading frames: ORF1 and ORF2. ORF1 is 6150 nt in length, encoding a large 2050-aa polyprotein with at least two conserved regions encoding a replication-associated protein and a coat protein, the latter of which is located at the 3′ end of ORF1. ORF2, consisting of 1185 nt, is located within ORF1 but has a different reading frame. It encodes a 394-aa-long putative movement protein. Phylogenetic analysis based on amino acid sequences revealed that the newly discovered virus exhibited the closest relationship to Hobart betaflexivirus 1 and rhodiola betaflexivirus 1, both of which belong to the genus Capillovirus, sharing 48.8% and 36.5% amino acid sequence identity, respectively, in the structural protein. This is the first report of the complete genome sequence of PpCMV in China.

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The nucleotide sequences reported in this manuscript have been deposited in the GenBank database under accession number MW822017 and are in the electronic supplementary material.

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Acknowledgements

We thank all the reviewers who participated in the review, as well as MJEditor (www.mjeditor.com) for providing English editing services during the preparation of this manuscript. This work was financially supported by the National Key Research and Development Program of China (2019YFD1001800), the Science and Technology Agency Program of Yunnan Province (202101BC070003-51), and the K. C. Wong Magna Fund of Ningbo University.

Funding

This work was financially supported by the National Key Research and Development Program of China (2019YFD1001800), the Science and Technology Agency Program of Yunnan Province (202101BC070003-51), and the K. C. Wong Magna Fund of Ningbo University.

Author information

Author notes

  1. Q. J. He and B. H. Chen contributed equally to this study.

Authors and Affiliations

  1. Institute of Alpine Economics and Botany, Yunnan Academy of Agricultural Sciences, Yunnan, China

    Qiongji He

  2. Center for Research and Development of Fine Chemicals, Guizhou University, Guiyang, 550025, China

    Binghua Chen

  3. State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Key Laboratory of Biotechnology in Plant Protection of MOA of China and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China

    Binghua Chen, Hongying Zheng, Mengyin Hua, Yueyan Yin, Jiejun Peng, Junmin Li, Jianping Chen, Fei Yan & Lin Lin

  4. College of Veterinary Medicine, South China Agricultural University, Guangzhou, China

    Binghua Chen

  5. Department of Biochemistry and Molecular Biology, Zhejiang Key Laboratory of Pathophysiology, Medical School of Ningbo University, Ningbo, 315211, China

    Yuhao Cao & Xuemei Song

Authors
  1. Qiongji He
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Contributions

Conceptualization: Lin Lin, Xuemei Song. Methodology: Binghua Chen, Yuhao Cao, Xuemei Song. Data analysis: Jiejun Peng, Junmin, Li. Formal analysis and investigation: Binghua Chen, Xuemei Song, Lin Lin. Writing – original draft preparation: Binghua Chen, Hongying Zheng, Jianping Chen, Fei Yan. Writing – review and editing: Binghua Chen, Xuemei Song, Lin Lin. Funding acquisition: Jianping Chen. Resources: Lin Lin, Qiongji He, Mengying Hua, Yueyan Yin, Jiejun Peng. Supervision: Jianping Chen, Fei Yan

Corresponding authors

Correspondence to Fei Yan, Xuemei Song or Lin Lin.

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This article does not contain any studies with human participants or animals performed by any of the authors.

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Communicated by Jesús Navas-Castillo

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He, Q., Chen, B., Zheng, H. et al. Complete genome sequence of Paris polyphylla chlorotic mottle virus infecting Paris polyphylla var. yunnanensis in southwest China. Arch Virol 168, 292 (2023). https://doi.org/10.1007/s00705-023-05896-2

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