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Identification and genetic characterization of a new totivirus from Bursera graveolens in western Ecuador

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Abstract

The complete genomic sequence of a previously uncharacterized virus provisionally named “Bursera graveolens associated totivirus 1” (BgTV-1) was obtained from Bursera graveolens (Kunth) Triana & Planch., a tree known as “palo santo” in Ecuador. The BgTV-1 genome is a monopartite double-stranded RNA (dsRNA) that is 4794 nucleotides (nt) long (GenBank accession number ON988291). Phylogenetic analysis of the capsid protein (CP) and RNA-dependent RNA polymerase (RdRp) placed BgTV-1 in a clade with other plant-associated totiviruses. Amino acid (aa) sequence comparisons of putative BgTV-1 proteins showed the highest sequence similarity to those of taro-associated totivirus L (QFS21890.1-QFS21891.1) and Panax notoginseng virus A (YP_009225664.1- YP_009225665.1), with 51.4% and 49.8% identity, respectively, in the CP and 56.4% and 55.2% identity, respectively, in the RdRp. BgTV-1 was not detected in total RNA from either of the two endophytic fungi cultured from BgTV-1-positive B. graveolens leaves, suggesting that BgTV-1 may be a plant-infecting totivirus. Based on its distinct host and the low aa sequence similarity between the CP of BgTV-1 and its counterparts from the closest relatives, the virus described in this study should be assigned as a new member of the genus Totivirus.

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Data availability

The complete genome sequence reported here is available in the GenBank database under accession number: ON988291

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Acknowledgments

The authors thank MSc. Marcos Vera Morales for assistance with the endophyte fungi assays.

Funding

The authors declare that no funds, grants, or other support were received during the preparation of this manuscript.

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Authors and Affiliations

  1. Centro de Investigaciones Biotecnológicas del Ecuador, CIBE, Escuela Superior Politécnica del Litoral, Km 30.5 Vía Perimetral Campus Gustavo Galindo, Guayaquil, Ecuador

    Juan F. Cornejo-Franco & Diego F. Quito-Avila

  2. Facultad de Ciencias de la Vida, Escuela Superior Politécnica del Litoral, ESPOL, Km 30.5 Vía Perimetral Campus Gustavo Galindo, Guayaquil, Ecuador

    Diego F. Quito-Avila

  3. Department of Botany and Plant Pathology, Oregon State University, Cordley Hall, 2701 SW Campus Way, Corvallis, OR, USA

    Robert A. Alvarez-Quinto

  4. USDA-ARS Horticultural Crops Disease and Pest Management Research Unit, Corvallis, OR, 97331, USA

    Dimitre Mollov

Authors
  1. Juan F. Cornejo-Franco
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  2. Robert A. Alvarez-Quinto
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  3. Dimitre Mollov
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  4. Diego F. Quito-Avila
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Contributions

Study conception and design: Juan F. Cornejo-Franco and Diego F. Quito-Avila. Material preparation, data collection, and analysis were performed by Juan F. Cornejo-Franco, Robert A. Alvarez-Quinto, and Dimitre Mollov. The first draft of the manuscript was written by Juan F. Cornejo-Franco; all authors commented on previous versions of the manuscript. All authors read and approved the final manuscript.

Corresponding author

Correspondence to Diego F. Quito-Avila.

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Conflict of interest

The authors declare that they have no conflict of interest.

Ethical approval

This research does not include any experiments involving human participants or animals and was directed under Genetic Resource Access Permit # MAE–DNB–CM–2018–0098 granted by the Department of Biodiversity of the Ecuadorean Ministry of the Environment.

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Handling Editor: Stephen John Wylie.

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Supplementary Information

Below is the link to the electronic supplementary material.

Supplementary file1 (TXT 5 KB)

705_2023_5715_MOESM2_ESM.docx

Online resource 1 List of primers used for detection and amplification of the genome of Bursera graveolens associated totivirus 1 (BgTV-1). CP, capsid; RdRp, RNA-dependent RNA polymerase; F1-F5, genome fragments 1-5; UTR, untranslated region; F, forward; R, reverse; bp, base pairs

705_2023_5715_MOESM3_ESM.docx

Online resource 2 Amino acid (aa) sequence identity between the capsid protein (CP) or the RNA-dependent-RNA polymerase (RdRp) of Bursera graveolens associated totivirus 1 (BgTV-1) and its counterparts from putative plant-associated members of the genus Totivirus. The NCBI accession number and the aa length for each hypothetical protein are shown

705_2023_5715_MOESM4_ESM.docx

Online resource 3 Samples of Bursera graveolens screened for Bursera graveolens associated totivirus 1 (BgTV-1) and its association with symptoms

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Cornejo-Franco, J.F., Alvarez-Quinto, R.A., Mollov, D. et al. Identification and genetic characterization of a new totivirus from Bursera graveolens in western Ecuador. Arch Virol 168, 102 (2023). https://doi.org/10.1007/s00705-023-05715-8

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