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Genomic characterization of a novel cytorhabdovirus infecting Ixeris denticulata in China

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Abstract

Ixeris denticulata is a perennial herbal plant with important medical and economic value. In this study, a novel rhabdovirus from I. denticulata with leaf curling and mottle symptoms was identified through next-generation sequencing and molecular cloning approaches. Based on the host species and properties of this virus, it was tentatively named "Ixeris denticulata-associated rhabdovirus" (IdaRV). IdaRV has a negative-sense RNA genome that is 12,705 nucleotides in length and has five open reading frames (ORFs) in the order 3’-nucleoprotein -phosphoprotein -movement protein -matrix protein -large RNA-dependent RNA polymerase-5’. Pairwise sequence comparisons showed that IdaRV had 42.2–53.0% sequence identity to members of the genera Cytorhabdovirus, Varicosavirus, Betanucleorhabdovirus, Gammanucleorhabdovirus, Dichorhavirus, and Alphanucleorhabdovirus in the subfamily Betarhabdovirinae. BLASTp searches indicated that putative products of ORF1, ORF2, ORF3, ORF4, and ORF5 of IdaRV are most closely related to those of rudbeckia virus 1 (RudV1, GenBank accession number ON185810), with 32.1%, 21.3%, 52.4%, 37.6%, and 57.1% amino acid sequence identity, respectively, at the protein level. Phylogenetic analysis showed that IdaRV forms a smaller branch with RudV1, which belongs to the genus Cytorhabdovirus. These results establish IdaRV as a novel rhabdovirus in the genus Cytorhabdovirus of the family Rhabdoviridae.

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Acknowledgement

This work was supported by grants from the National Natural Science Foundation of China (nos. 32372480 and 31930092), the Industrial Innovation Institute Project of Longquan, China (no. 109205-Y11902), and the Yunnan Zhou Xueping Expert Workstation (no. 202205AF150047).

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Author notes

  1. Yaqin Wang and Yongzhi Wang contributed equally to this work.

Authors and Affiliations

  1. State Key Laboratory of Rice Biology and Breeding, Institute of Biotechnology, Zhejiang University, Hangzhou, 310058, China

    Yaqin Wang, Yongzhi Wang, Zhenghe Li & Xueping Zhou

  2. Bureau of Agriculture and Rural Affairs of Longquan City, Longquan, 610100, China

    Qinwen Zeng & Qiqiang Xu

  3. Key Laboratory of Vector Biology and Pathogen Control of Zhejiang Province, College of Life Sciences, Huzhou University, Huzhou, 313000, China

    Zhanqi Wang

  4. State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, 100193, China

    Xueping Zhou

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  1. Yaqin Wang
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Contributions

Xueping Zhou and Zhanqi Wang contributed to the study conception and design. Yaqin Wang and Yongzhi Wang performed the sample collection and data analysis. Qinwen Zeng and Qiqiang Xu prepared the figures and tables. Yaqin Wang and Zhanqi Wang wrote the manuscript. Zhenghe Li and Xueping Zhou revised the manuscript. All authors read and approved the final manuscript.

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Correspondence to Zhanqi Wang or Xueping Zhou.

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Communicated by Jesús Navas-Castillo

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Wang, Y., Wang, Y., Li, Z. et al. Genomic characterization of a novel cytorhabdovirus infecting Ixeris denticulata in China. Arch Virol 169, 46 (2024). https://doi.org/10.1007/s00705-024-05988-7

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