Abstract
Here, we report the full-length genome sequence of a novel cogu-like virus identified in Brassica campestris L. ssp. Chinensis (B. campestris), an economically important vegetable in China. This virus, tentatively named “Brassica campestris chinensis coguvirus 1” (BCCoV1), has a bipartite genome that consists of two RNA molecules (RNA1 and RNA2). The negative-stranded (ns) RNA1 is 6757 nt in length, encoding the putative RNA-dependent RNA polymerase (RdRp), and the ambisense RNA2 is 3061 nt long, encoding the putative movement protein (MP) and nucleocapsid protein (NP). A homology search of the RdRp, MP, and NP showed that they are closely related to five other recently discovered negative-stranded RNA (nsRNA) viruses infecting plants, belonging to the new genus Coguvirus. Phylogenetic analysis of the 252-kDa RdRp confirmed the classification of this virus, showing that BCCoV1 possibly belongs to the genus Coguvirus, family Phenuiviridae, order Bunyavirales. The present study improves our understanding of the viral diversity in B. campestris and the evolution of nsRNA viruses.
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Data availability
The complete genome sequence of BCCoV1 has been deposited in the NCBI database with the accession numbers MW291944 and MW291945.
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Acknowledgements
This work was supported by the National Key Research and Development Program of China (2017YFD0101803) and Bulk Vegetable Industry Technology Systems of China (CARS-23-G-26).
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705_2021_5031_MOESM1_ESM.tiff
Supplementary file1 (TIFF 2170 KB) Fig. S1 Confirmation of the presence of the BCCoV1 genome using RT-PCR. The primer pairs CoVRdF/CoVRdR for RNA1 (1228 bp), CoVMNF/CoVMNR for RNA2 (1080 bp), and BraActinF/BraActinR for the B. campestris actin gene (326 bp) were used. D405-3 (symptomatic), DC303-N (non-symptomatic), and deionized water were used as controls
705_2021_5031_MOESM2_ESM.tiff
Supplementary file2 (TIFF 1853 KB) Fig. S2 Terminal sequences and hairpin structure of the BCCoV1 genomic RNAs. (A) The panhandle structures formed by the 5’ and 3’ ends of BCCoV1 RNA1 and RNA2. (B) Multiple alignment of the ends of the BCCoV1 RNA genomic segments with those of other nsRNA viruses. Identical nucleotides are shown in gray. CiVA, citrus virus A (MG764565 and MG764566); CiLFV, citrus leaf flecking-associated virus (MH137740 and MH137741); CCGaV, citrus concave gum-associated virus (KX960111 and KX960112). (C) Hairpin structure and predicted transcription termination signal (TTS) motif (in blue) in the intergenic region (IR) of the vcRNA2 strand of BCCoV1
705_2021_5031_MOESM3_ESM.tiff
Supplementary file3 (TIFF 1212 KB) Fig. S3 Multiple alignment of conserved motifs in the RdRp sequences of BCCoV1 and selected nsRNA viruses. Positions in the BCCoV1 RdRp are indicated. CiVA, citrus virus A (AYN78568.1); CiLFV, citrus leaf flecking-associated virus (QBZ68778.1); CCGaV, citrus concave gum-associated virus (AYN78565.1); WCLaV-1, watermelon crinkle leaf-associated virus 1 (ASY01340.1); WCLaV-2, watermelon crinkle leaf-associated virus 2 (ASY01343.1); GOUV, Gouleako virus (YP_009664621.1); RVFV, Rift Valley fever virus (YP_003848704.1); BaPV, Badu phasivirus (YP_009505327.1)
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Tang, L., Song, L., Ye, Z. et al. A novel negative-stranded RNA virus of the order Bunyavirales identified in Brassica campestris L. ssp. chinensis. Arch Virol 166, 1525–1528 (2021). https://doi.org/10.1007/s00705-021-05031-z
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DOI: https://doi.org/10.1007/s00705-021-05031-z