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Complete nucleotide sequence of hackberry virus A, a tentative member of the genus Waikavirus

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Abstract

The complete genomic sequence of a waikavirus from Chinese hackberry in Zhejiang province, China, named “hackberry virus A” (HVA), was determined using high-throughput sequencing (HTS) combined with reverse transcription polymerase chain reaction (RT-PCR) and rapid amplification of cDNA ends (RACE) PCR. The bicistronic genomic RNA of HVA was found to consist of 12,691 nucleotides (nt), excluding the 3’-terminal poly(A) tail, and to encode a large polyprotein of 3783 amino acids (aa) and an additional 10.3-kDa protein. The aa sequences of the Pro-Pol and the CP regions of this virus share 39.8–44.2% and 25.5–36.4% identity, respectively, with currently known waikaviruses. These values are significantly below the current species demarcation threshold (< 75% and < 80% aa identity for the CP and Pro-Pol region, respectively) for the family Secoviridae, indicating that HVA represents a new species in the genus Waikavirus. This is the first report of a virus infecting Chinese hackberry.

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Acknowledgements

We thank Prof. M. J. Adams, Minehead, UK, for correcting the English of the manuscript. This work was financially supported by China Agriculture Research System of MOF and MARA (CARS-24-C-04), Ningbo Major Special Projects of the Plan “Science and Technology Innovation 2025” (2021Z106), and sponsored by K. C. Wong Magna Fund in Ningbo University.

Funding

This work were supported by Agriculture Research System of China (Grant no. CARS-24-C-04), Science and Technology Innovation 2025 Major Project of Ningbo (Grant no. 2021Z106) and K. C. Wong Magna Fund in Ningbo University.

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Authors and Affiliations

  1. State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China

    Jiajia Weng, Mengting Wu, Zhuangxin Ye, Lin Wang, Bin Ke, Chanchan Huang, Yuwen Lu, Jiejun Peng, Lin Lin, Shaofei Rao, Guanwei Wu, Jianping Chen, Hongying Zheng & Fei Yan

  2. Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China

    Jiajia Weng, Mengting Wu, Zhuangxin Ye, Lin Wang, Bin Ke, Chanchan Huang, Yuwen Lu, Jiejun Peng, Lin Lin, Shaofei Rao, Guanwei Wu, Jianping Chen, Hongying Zheng & Fei Yan

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  1. Jiajia Weng
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Correspondence to Hongying Zheng or Fei Yan.

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Weng, J., Wu, M., Ye, Z. et al. Complete nucleotide sequence of hackberry virus A, a tentative member of the genus Waikavirus. Arch Virol 168, 137 (2023). https://doi.org/10.1007/s00705-023-05764-z

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