First complete genome sequence of an isolate of cowpea severe mosaic virus from South America

Abstract

In this study, the complete nucleotide sequence of a Brazilian isolate of cowpea severe mosaic virus (CPSMV) is presented for the first time. To date, the CPSMV-DG isolate, from the USA, is the only one with the complete known genome. High-throughput sequencing (Illumina HiSeq) and Sanger sequencing of the total RNA extract from a cowpea plant collected in Teresina city, Brazil, revealed the genome sequence of the CPSMV-Ter1 isolate. RNA-1 and RNA-2 are, respectively, 5921 and 3465 nucleotides (nt) long without the poly(A) tail, and show 77.91% and 76.08% nt sequence identity with CPSMV-DG, considered the type isolate of the species. The open reading frames (ORFs) were determined and the cleavage sites of the polyproteins were predicted. Although the two isolates show a similar genomic organization, there was a low percentage of sequence identity between Ter1 and DG. Furthermore, pairwise comparisons of a partial RNA-1 fragment between CPSMV-Ter1 and 11 CPSMV isolates from Brazil indicated 94.6 to 94.8% nt and 98.9% to 99.4% aa sequence identities.

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Funding

This work was funded by CNPq [JEABJ PQ fellowship]. KJMLT was the recipient of a CAPES scholarship.

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Conceptualization, JEABJ and FMZ; investigation, KJMLT, RSC, and LLL; writing—original draft, KJMLT; and writing—review and editing, JEABJ and FMZ.

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Correspondence to José Evando A. Beserra Jr..

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The authors declare that they have no conflicts of interest.

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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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The sequences reported in this paper have been deposited in the GenBank under accession numbers MW387017 and MW392574.

Edited by Karel Petrzik.

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Teixeira, K.J.M.L., de Souza Cascardo, R., Leal, L.L. et al. First complete genome sequence of an isolate of cowpea severe mosaic virus from South America. Virus Genes 57, 238–241 (2021). https://doi.org/10.1007/s11262-021-01831-2

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Keywords

  • Comovirus
  • CPSMV
  • High-throughput sequencing
  • Secoviridae
  • Vigna unguiculata