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Complete genome sequence of the first chrysovirus from the phytopathogenic fungus Alternaria solani on potato in China

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Abstract

The complete genome sequence of a double-stranded RNA (dsRNA) mycovirus that was isolated from Alternaria solani strain DT-10 causing potato foliar disease was determined. The virus, designated as "Alternaria solani chrysovirus 1" (AsCV1), has four dsRNA segments (dsRNA 1-4) with a length of 3600 bp, 3128 bp, 2996 bp, and 2714 bp, respectively. The RNA-dependent RNA polymerase (RdRp, 1084 amino acids [aa]), putative capsid protein (905 aa), alphachryso-P3 (835 aa), and alphachryso-P4 (729 aa) were encoded by dsRNA1, dsRNA2, dsRNA3, and dsRNA4, respectively, which had the highest sequence identity of 41.77%-72.38% to their counterparts in Helminthosporium victoriae virus 145S (HvV145S) of the genus Alphachrysovirus, family Chrysoviridae. Moreover, the 5′-untranslated regions (UTRs) of AsCV1 dsRNA 1-4, which contained several unique inserts (3-37 bp) and deletions (5-64 bp), shared 51.65%-68.01% identity with those of HvV145S. Phylogenetic analysis based on RdRp sequences showed that AsCV1 clustered the most closely with HvV145S. Considering its distinct host specificity, the low sequence similarity of its encoded proteins to those of other viruses, the unusual features of the 5′-UTRs of its dsRNA 1-4, and the phylogenetic position of its RdRp gene, AsCV1 should be considered a member of a new species in the genus Alphachrysovirus. To the best of our knowledge, this is the first alphachrysovirus identified from phytopathogenic A. solani.

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Funding

This work was financially supported by the National Key Research and Development Program of China (2018YFD0200803).

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Authors and Affiliations

  1. College of Plant Protection, China Agricultural University, Haidian District, Beijing, 100193, People’s Republic of China

    Chenghui Hu, Siwei Li, Chunyan Wu, Yiran Mi, Qingnian Cai, Tao Zhou, Can Zhao & Xuehong Wu

  2. College of Horticulture, China Agricultural University, Haidian District, Beijing, 100193, People’s Republic of China

    Can Zhao

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  1. Chenghui Hu
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  2. Siwei Li
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Correspondence to Can Zhao or Xuehong Wu.

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705_2021_5263_MOESM1_ESM.tif

Supplementary file1 (TIF 12467 KB) Fig. S1 (A) Multiple amino acid sequence alignment of the RNA-dependent RNA polymerase (RdRp) domains of AsCV1 and 10 other members of the family Chrysoviridae, using the ClustalX 2.0 program. The eight conserved motifs in RdRp are numbered as I, II, III, IV, V, VI, VII, and VIII, as shown above the amino acid sequence. Numbers in parentheses represent the number of amino acid residues between the motifs. Black stars indicate identical amino acid residues, colons indicate amino acids with high chemical similarity, and dots indicate amino acid residues with low chemical similarity. The red stars indicate AsCV1. Virus names and GenBank accession numbers are as follows: VdCV1, Verticillium dahliae chrysovirus 1 (HM004067); CnCV1, Cryphonectria nitschkei chrysovirus 1 (GQ290649); IjCV1, Isaria javanica chrysovirus 1 (KX898416); AsCV1, Alternaria solani chrysovirus 1 (MW656210); HvV145S-A9, Helminthosporium victoriae virus 145S (AF297176); ACDACV, Amasya cherry disease associated chrysovirus (AJ781166); CgCV1, Colletotrichum gloeosporioides chrysovirus 1 (KT581957); FoCV1, Fusarium oxysporum chrysovirus 1 (EF152346); AaCV1, Alternaria alternata chrysovirus 1 (LC350277); PjCV1, Penicillium janczewskii chrysovirus 1 (KT601115); FgV2, Fusarium graminearum dsRNA mycovirus 2 (HQ343295). (B) Multiple sequence alignment of the 5′-untranslated regions (UTRs) and 3′-UTRs of the four dsRNA segments of AsCV1. Dark blue, pink, and green represent 100%, 75%, and 50% nucleotide sequence identity, respectively

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Hu, C., Li, S., Wu, C. et al. Complete genome sequence of the first chrysovirus from the phytopathogenic fungus Alternaria solani on potato in China. Arch Virol 166, 3493–3497 (2021). https://doi.org/10.1007/s00705-021-05263-z

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