Sequence analysis of the DA domain of glycoprotein E2 of pestiviruses isolated from beef cattle in Southern Brazil

Abstract

The envelope glycoprotein E2 of pestiviruses is a major target for neutralizing antibodies. In this study, we analyzed the E2 DA domain of 43 pestiviruses from Southern Brazil. The isolates were identified as Bovine viral diarrhea virus (BVDV) subtypes 1a and 1b or BVDV-2b. Compared to reference strains, the BVDV-1 and -2 isolates had four and two mutations in the DA domain, respectively. All BVDV-2 isolates had a deletion of residues 724 and 725. All mutated amino acids in the BVDV isolates had the same aa substitution, and all were in previously identified antibody binding sites. It is possible that an immunity-mediated selection is acting on the pestiviruses circulating in Southern Brazil.

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Availability of data and material

The datasets generated and/or analyzed in the current study are available in the GenBank database and can also be made available by the corresponding author on reasonable request.

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Acknowledgements

Graduate students from the Programa de Pós-graduação em Medicina Veterinária, UFSM (COF, PSBO, JCGN). Carolina de Oliveira Freitas and Pablo Sebastian Britto de Oliveira thank the Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) (Brazil) for their scholarships. Francielle Liz Monteiro thanks CNPq and the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES) (Brazil) for the scholarship. Jéssica Caroline Gomes Noll thanks CAPES for the scholarship. José Valter Joaquim Silva Júnior was supported by CAPES Postdoctoral Scholarship. Eduardo Furtado Flores (process 301414/2010-6) and Rudi Weiblen (process 304153/2014-1) were supported by CNPq research fellowships.

Funding

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) and Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES). Finance code 001.

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Authors

Contributions

COF extracted the RNA, amplified the viral genes, analyzed gene sequenced, and assisted in the experimental design, interpretation of the results, and preparation of the manuscript; PBSO analyzed gene sequences, performed the analysis of amino acids and phylogeny, and assisted in the experimental design, interpretation of results, and preparation of the manuscript; FLM assisted in the amplification of viral genes, experimental design, and preparation of the manuscript; JCGN performed virus isolation and amplification; JVJr analyzed gene sequences, assisted in the analysis of phylogeny and amino acids, assisted in the experimental design, and interpretation of the results, and prepared the final version of the manuscript; RW assisted in the interpretation of results, experimental design and final review of the manuscript; EFF carried out the experimental design, assisted in the interpretation of the results, and preparation and final revision of the manuscript, and guided the study.

Corresponding author

Correspondence to Eduardo Furtado Flores.

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The authors declare that they have no competing interests.

Ethical approval

Not applicable. This study did not involve animal experimentation. The samples used in the study came from the diagnostic service of Setor de Virologia, Universidade Federal de Santa Maria, Brazil.

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Supplementary Information

Below is the link to the electronic supplementary material.

Sequences (and GenBank accession numbers) containing the DA domain of BVDV-1 (S1) analyzed in our study. (GB 4305 KB)

Sequences (and GenBank accession numbers) containing the DA domain of BVDV-2 (S2) analyzed in our study. (GB 2653 KB)

Sequences (and GenBank accession numbers) containing the DA domain of HoBiPeV (S3) analyzed in our study. (GB 555 KB)

Phylogeny based on partial 5'UTR sequences of pestivirus isolates. The analyzes were performed using MEGA 7 software and the neighbor-joining method. The evolutionary distances were calculated using the p-distance method. Bootstrap values were calculated using 1000 replicates. The BVDV-1 and BVDV-2 isolates sequenced in this study are indicated by symbols: open circles indicate the pestiviruses previously analyzed by Monteiro et al. [31], using primers HCV 90-368 or BVDV-2#3; filled circles indicate to the isolates from this study, amplified with primers BP189-389. (PDF 400 KB)

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de Oliveira Freitas, C., de Oliveira, P.S.B., Monteiro, F.L. et al. Sequence analysis of the DA domain of glycoprotein E2 of pestiviruses isolated from beef cattle in Southern Brazil. Arch Virol 166, 1163–1170 (2021). https://doi.org/10.1007/s00705-020-04910-1

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