A novel dsRNA element isolated from the Aspergillus foetidus mycovirus complex

Kozlakidis, Zisis; Herrero, Noemí; Özkan, Selin; Bhatti, Muhammad Faraz; Coutts, Robert H.A.

doi:10.1007/s00705-013-1779-3

Cited by 21 publications

(23 citation statements)

References 21 publications

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“…A similar organization is reported for RnMV-2, also referred to as yado-kari virus 1 [58], whereas AfsV-2 has a smaller genome and the conserved RdRp domain is positioned in the center of the protein [59]. Both, RnMV-2 and AfsV-2 are described to be unique viruses which hijack the capsid protein of an unrelated dsRNA virus [58,59]. Whether this unusual behavior also holds true for RsMV-1 needs further investigation.…”

Section: Aspergillus Foetidus Slow Virus 2 -Like Virus In R Solani Dc17mentioning

confidence: 66%

Deep Sequencing Analysis Reveals the Mycoviral Diversity of the Virome of an Avirulent Isolate of Rhizoctonia solani AG-2-2 IV

Bartholomäus¹,

Wibberg

Winkler

et al. 2016

PLoS ONE

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Rhizoctonia solani represents an important plant pathogenic Basidiomycota species complex and the host of many different mycoviruses, as indicated by frequent detection of dsRNA elements in natural populations of the fungus. To date, eight different mycoviruses have been characterized in Rhizoctonia and some of them have been reported to modulate its virulence. DsRNA extracts of the avirulent R. solani isolate DC17 (AG2-2-IV) displayed a diverse pattern, indicating multiple infections with mycoviruses. Deep sequencing analysis of the dsRNA extract, converted to cDNA, revealed that this isolate harbors at least 17 different mycovirus species. Based on the alignment of the conserved RNA-dependent RNA-polymerase (RdRp) domain, this viral community included putative members of the families Narnaviridae, Endornaviridae, Partitiviridae and Megabirnaviridae as well as of the order Tymovirales. Furthermore, viruses, which could not be assigned to any existing family or order, but showed similarities to so far unassigned species like Sclerotinia sclerotiorum RNA virus L, Rhizoctonia solani dsRNA virus 1, Aspergillus foetidus slow virus 2 or Rhizoctonia fumigata virus 1, were identified. This is the first report of a fungal isolate infected by 17 different viral species and a valuable study case to explore the diversity of mycoviruses infecting R. solani.

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Section: Aspergillus Foetidus Slow Virus 2 -Like Virus In R Solani Dc17mentioning

confidence: 66%

Deep Sequencing Analysis Reveals the Mycoviral Diversity of the Virome of an Avirulent Isolate of Rhizoctonia solani AG-2-2 IV

Bartholomäus¹,

Wibberg

Winkler

et al. 2016

PLoS ONE

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“…S4B). Mycovirus RdRPs are known to be related to the RdRPs of viruses in the picorna-like superfamily of eukaryotic, positive-strand RNA viruses (26), and numerous examples can be found in the literature including Ustilaginoidea virens nonsegmented virus 1 (27), a number of viruses in the Partitiviridae family (28), and Aspergillus foetidus virus S2, which is closely related to several members of the Caliciviridae family and Comovirinae subfamily (29). Our phylogenetic analysis results described here (Fig.…”

Section: Biological Comparison Of Virus-cured and Virus-infected Fungalmentioning

confidence: 80%

A novel mycovirus from Aspergillus fumigatus contains four unique dsRNAs as its genome and is infectious as dsRNA

Kanhayuwa

Kotta‐Loizou

Özkan

et al. 2015

Proc. Natl. Acad. Sci. U.S.A.

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126

226

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We report the discovery and characterization of a double-stranded RNA (dsRNA) mycovirus isolated from the human pathogenic fungus Aspergillus fumigatus, Aspergillus fumigatus tetramycovirus-1 (AfuTmV-1), which reveals several unique features not found previously in positive-strand RNA viruses, including the fact that it represents the first dsRNA (to our knowledge) that is not only infectious as a purified entity but also as a naked dsRNA. The AfuTmV-1 genome consists of four capped dsRNAs, the largest of which encodes an RNA-dependent RNA polymerase (RdRP) containing a unique GDNQ motif normally characteristic of negative-strand RNA viruses. The third largest dsRNA encodes an S-adenosyl methionine–dependent methyltransferase capping enzyme and the smallest dsRNA a P-A-S–rich protein that apparently coats but does not encapsidate the viral genome as visualized by atomic force microscopy. A combination of a capping enzyme with a picorna-like RdRP in the AfuTmV-1 genome is a striking case of chimerism and the first example (to our knowledge) of such a phenomenon. AfuTmV-1 appears to be intermediate between dsRNA and positive-strand ssRNA viruses, as well as between encapsidated and capsidless RNA viruses.

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“…7). PaFlV1 instead forms a wellsupported clade with Aspergillus foetidus slow virus 2 that stems from a ssRNA tree, therefore showing that this two viruses are indeed phylogenetically ssRNA viruses, and the classification of Aspergillus foetidus slow virus 2 as a dsRNA virus element (Kozlakidis et al, 2013) should, in our opinion, be reviewed. Supplementary Fig.…”

Section: Phylogenetic Analysis Of Viral Sequencesmentioning

confidence: 99%

Multiple approaches for the detection and characterization of viral and plasmid symbionts from a collection of marine fungi

Nerva¹,

et al. 2016

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Highlights• First report of mycoviruses isolated from fungi from marine environment.• Survey of mycoviruses using multiple approaches for both DNA and RNA genomes.• RNAseq analysis is superior to sRNA for de novo assembly of mycoviruses.• Twelve new virus species were characterized molecularly.• Expression of a viral RNA from an endogenized cDNA segment. AbstractThe number of reported mycoviruses is increasing exponentially due to the current ability to detect mycoviruses using next-generation sequencing (NGS) approaches, with a large number of viral genomes built in-silico using data from fungal transcriptome projects. We decided to screen a collection of fungi originating from a specific marine environment (associated with the seagrass Posidonia oceanica) for the presence of mycoviruses: our findings reveal a wealth of diversity among these symbionts and this complexity will require further studies to address their specific role in this ecological niche. In specific, we identified twelve new virus species belonging to nine distinct lineages: they are members of megabirnavirus, totivirus, chrysovirus, partitivirus and five still undefined clades. We showed evidence of an endogenized virus ORF, and evidence of accumulation of dsRNA from metaviridae retroviral elements. We applied different techniques for detecting the presence of mycoviruses including (i) dsRNA extraction and cDNA cloning, (ii) small and total RNA sequencing through NGS techniques, (iii) rolling circle amplification (RCA) and total DNA extraction analyses, (iv) virus purifications and electron microscopy. We tried also to critically evaluate the intrinsic value and limitations of each of these techniques. Based on the samples we could compare directly, RNAseq analysis is superior to sRNA for de novo assembly of mycoviruses. To our knowledge this is the first report on the virome of fungi isolated from marine environment.

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A novel dsRNA element isolated from the Aspergillus foetidus mycovirus complex

Cited by 21 publications

References 21 publications

Deep Sequencing Analysis Reveals the Mycoviral Diversity of the Virome of an Avirulent Isolate of Rhizoctonia solani AG-2-2 IV

Deep Sequencing Analysis Reveals the Mycoviral Diversity of the Virome of an Avirulent Isolate of Rhizoctonia solani AG-2-2 IV

A novel mycovirus from Aspergillus fumigatus contains four unique dsRNAs as its genome and is infectious as dsRNA

Multiple approaches for the detection and characterization of viral and plasmid symbionts from a collection of marine fungi

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