Complete genome sequence of a German isolate of spartina mottle virus supports its classification as a member of the pro

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ANNOTATED SEQUENCE RECORD

Complete genome sequence of a German isolate of spartina mottle virus supports its classification as a member of the proposed genus “Sparmovirus” within the family Potyviridae H. Rose1 · W. Menzel2 · D. Knierim2 · F. Rabenstein3 · Edgar Maiss1  Received: 23 April 2020 / Accepted: 6 June 2020 © Springer-Verlag GmbH Austria, part of Springer Nature 2020

Abstract Spartina mottle virus (SpMV), an unassigned member of the family Potyviridae, has been known since 1980, when it was first described in England and Wales in symptomatic plants of the genus Spartina. In infected cells, flexuous particles and pinwheel inclusion bodies were found that resemble those of potyvirids. To date, the NCBI database contains only two partial sequences of a German (Nessmersiel) and an Italian (Assisi) isolate, suggesting that SpMV could be the first member of a new genus, called “Sparmovirus”, in the family Potyviridae. In this study, the first complete genome sequence of the German SpMV isolate (SpMV Ger) was determined. The genome of SpMV is a single-stranded, monopartite, polyadenylated RNA consisting of 9376 nucleotides. Sequence analysis revealed a genome organization similar to that of classical potyviruses, including many conserved features. In phylogenetic analysis, SpMV could not be assigned to any of the known genera, but it showed the closest relationship to rymoviruses and common reed chlorotic stripe virus (CRCSV, unassigned). Sequence comparisons confirmed that a new genus should be established containing SpMV, CRCSV, and three Bermuda grass mosaic virus isolates, which are considered divergent strains of SpMV. The first description of spartina mottle virus (SpMV) isolated from Spartina plants in England and Wales was published in 1980 [1]. SpMV had a close serological relationship to agropyron mosaic virus, a member of the genus Potyvirus, and based on this, SpMV was classified as a putative member of this genus [1]. In 1990, the Potyvirus Handling Editor: Ralf Georg Dietzgen. Electronic supplementary material  The online version of this article (https​://doi.org/10.1007/s0070​5-020-04726​-z) contains supplementary material, which is available to authorized users. * Edgar Maiss [email protected]‑hannover.de 1



Department of Phytomedicine, Institute of Horticultural Production Systems, Leibniz Universität Hannover, Herrenhäuser Str. 2, 30419 Hannover, Germany

2



Leibniz Institute DSMZ, German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7 B, 38124 Braunschweig, Germany

3

Federal Research Centre for Cultivated Plants, Institute for Epidemiology and Pathogen Diagnostics, Julius Kühn-Institut, Erwin‑Baur‑Straße 27, 06484 Quedlinburg, Germany



Taxonomy Workshop proposed the establishment of the family Potyviridae and subdividing it into the genera Bymovirus (fungus transmissible), Ipomovirus (whitefly-transmissible), Potyvirus (aphid-transmissible), and Rymovirus (mite-transmissible) [2]. Later SpMV was considered a member of the genes Rymovirus. In 2000, the ICTV separated t