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Molecular characterization and complete genome of alstroemeria mosaic virus (AlMV)

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A Correction to this article was published on 27 November 2019

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Abstract

Even though alstroemeria mosaic virus (AlMV) is one of the most important viruses affecting alstroemeria plants, its genome is only partially available in public sequence databases. High throughput sequencing (HTS) of RNA from alstroemeria plants with symptoms of mosaic and streaking, collected in Lasso-Ecuador, indicated the presence of AlMV and lily symptomless virus. In this study, we aimed to assemble and characterize the complete genome sequence of AlMV. Reads from Illumina sequencing of ribosomal RNA-depleted total RNA were assembled into contigs that were mapped to the sunflower chlorotic mottle virus genome, revealing the 9974 bp complete genome sequence of AlMV. Multiple sequence alignment of the AlMV polyprotein with close homologs allowed the identification of ten mature proteins P1, HC-Pro, P3, 6K1, CI, 6K2, NIa-VPg, NIa-Pro, NIb and CP. Furthermore, several potyvirus motifs were identified in the AlMV polyprotein including those related to potyvirus aphid transmission 334KMTC337, 592PTK594 and 2800DAG2802. Phylogenetic analysis based in the polyprotein showed that AlMV belongs to the potato virus Y clade and its closest relative is sunflower ring blotch virus. This study describes the first complete genome of AlMV and its placement within the genus Potyvirus, providing valuable information for future studies on this economically important virus.

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Change history

  • 27 November 2019

    The original version of this article unfortunately contained an error in the length of AIMV genome sequence.

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Acknowledgements

The authors thank Dr. Nathan Richard Walker for revising and improving our manuscript. All bioinformatics analyses were performed in the Rumiñahui high performance cluster of Universidad de las Fuerzas Armadas-ESPE. Biological samples were collected and sequenced under framework contract MAE–DNB–CM–2017–0071.

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Authors and Affiliations

  1. Departamento de Ciencias de La Vida y La Agricultura, Universidad de Las Fuerzas Armadas-ESPE, Sangolquí, Ecuador

    Francisco Mosquera-Yuqui & Francisco J. Flores

  2. Centro de Investigación de Alimentos, CIAL, Facultad de Ciencias de La Ingeniería e Industrias, Universidad Tecnológica Equinoccial, Quito, Ecuador

    Patricia Garrido & Francisco J. Flores

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  1. Francisco Mosquera-Yuqui
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Contributions

Conceived the study: FJF. Designed and performed the research: FMY, PG, and FJF. Analyzed data: FMY, and FJF. Curated data: FMY. Wrote the manuscript: FMY, PG. Reviewed the manuscript and supervised the research: FJF. All authors read and approved the final manuscript.

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Correspondence to Francisco Mosquera-Yuqui.

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Mosquera-Yuqui, F., Garrido, P. & Flores, F.J. Molecular characterization and complete genome of alstroemeria mosaic virus (AlMV). Virus Genes 56, 87–93 (2020). https://doi.org/10.1007/s11262-019-01712-9

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