Characterization of two novel mycoviruses from Penicillium digitatum and the related fungicide resistance analysis

Niu, Yuhui; Yuan, Yongze; Mao, J.; Yang, Zhu L.; Cao, Qing; Zhang, Tingfu; Wang, Shengqiang; Liu, De Li

doi:10.1038/s41598-018-23807-3

Cited by 57 publications

(67 citation statements)

References 54 publications

(87 reference statements)

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“…PmOLV1 infection is very stable in the mycelia of P. matteucciicola strain LG915-1. 24 strains were obtained by protoplast regeneration, 44 strains were obtained through single spore isolation, and 56 isolates were obtained through hyphal tip sub-culturing following ribavirin and cycloheximide treatment, as reported previously [25]. However, all such attempts at eliminating PmOLV1 from the mycelial cells failed (data not shown).…”

Section: Discussionmentioning

confidence: 94%

Molecular Characterization of a Novel Ourmia-Like Virus Infecting Phoma matteucciicola

Zhou

Wang

Liang

et al. 2020

Viruses

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Here, we report a novel (+) ssRNA mycovirus, Phoma matteucciicola ourmia-like virus 1 (PmOLV1), isolated from Phoma matteucciicola strain LG915-1. The genome of PmOLV1 was 2603 nucleotides long and contained a single open reading frame (ORF), which could be translated into a product of RNA-dependent RNA polymerase (RdRp) by both standard and mitochondrial genetic codons. Cellular fractionation assay indicated that PmOLV1 RNAs are likely more enriched in mitochondria than in cytoplasm. Phylogenetic analysis indicated that PmOLV1 is a new member of the genus Penoulivirus (recently proposed) within the family Botourmiaviridae.

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Section: Discussionmentioning

confidence: 94%

Molecular Characterization of a Novel Ourmia-Like Virus Infecting Phoma matteucciicola

Zhou

Wang

Liang

et al. 2020

Viruses

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“…Another phenotype, different from canonical hypovirulence, is the reduction in fungicide resistance observed following viral infection of prochloraz-resistant strain of Penicillium digitatum [113] .…”

Section: Discussionmentioning

confidence: 99%

Discovery of new mycoviral genomes within publicly available fungal transcriptomic datasets

Gilbert

Holcomb

Allscheid

et al. 2019

Preprint

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The distribution and diversity of RNA viruses in fungi is incompletely understood due to the often cryptic nature of mycoviral infections and the focused study of primarily pathogenic and/or economically important fungi. As most viruses that are known to infect fungi possess either single-stranded or double-stranded RNA genomes, transcriptomic data provides the opportunity to query for viruses in diverse fungal samples without any a priori knowledge of virus infection.Here we describe a systematic survey of all transcriptomic datasets from fungi belonging to the subphylum Pezizomycotina. Using a simple but effective computational pipeline that uses reads discarded during normal RNA-seq analyses, followed by identification of a viral RNA-dependent RNA polymerase (RdRP) motif in de novo assembled contigs, 59 viruses from 44 different fungi were identified. Among the viruses identified, 89% were determined to be new species and 68% are, to our knowledge, the first virus described from the fungal species. Comprehensive analyses of both nucleotide and inferred protein sequences characterize the phylogenetic relationships between these viruses and the known set of mycoviral sequences and support the classification of up to four new families and two new genera. Thus the results provide a deeper understanding of the scope of mycoviral diversity while also increasing the distribution of fungal hosts. Further, this study demonstrates the suitability of analyzing RNA-seq data to facilitate rapid discovery of new viruses.

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“…Due to the lack of therapeutic drugs, alternative treatments might become more important. Although there is no relationship between mycovirus infection and the development of azole resistance, mycovirus therapy might be helpful as an alternative treatment of fungicide resistant fungi [ 23 – 27 ]. However, experimental design is hampered by the lack of extracellular infectious virus particles.…”

Section: Discussionmentioning

confidence: 99%

Discovery and characterization of novel Aspergillus fumigatus mycoviruses

2018

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In the last few years, increasing numbers of viruses infecting fungi have been identified. In this study, we used an in silico approach for the analysis of deep RNA sequencing data in order to discover and characterize putative genomic ssRNA or dsRNA mycovirus sequences in Aspergillus fumigatus. RNA sequencing reads of A. fumigatus strains were mapped against the A. fumigatus Af293 reference genome. Unmapped reads were collected for de novo assembly. Contigs were analyzed by Blastx comparison with a mycovirus protein database. Assembled viral genomes were used as template for remapping of RNA sequencing reads. In total, deep RNA sequencing results from 11 A. fumigatus strains were analyzed for the presence of mycoviral genomic RNAs. In 9 out of 11 strains, putative mycoviral RNA genomes were identified. Three strains were infected with two different mycovirus species. Two strains were infected with Aspergillus fumigatus polymycovirus type-1 (AfuPmV-1). Four strains contained fully recovered genomic RNA of unknown narna-like viruses designated as Aspergillus fumigatus narnavirus-1 and Aspergillus fumigatus narnavirus-2 (AfuNV-1 and AfuNV-2). Both viruses showed 38% amino acid sequence identity to Beihai narna-like virus-21. Three strains contained partially recovered genomic RNA of an unknown narna-like virus. Two strains contained fully recovered genomic RNAs of an unknown partitivirus designated as Aspergillus fumigatus partitivirus-2 (AfuPV-2) which showed 50% amino acid sequence identity to Alternaria alternata partitivirus-1. Finally, one strain contained fully recovered genomic RNA of an unknown mitovirus designated as Aspergillus fumigatus mitovirus-1 (AfuMV-1) which showed 34% amino acid sequence identity to Sclerotina sclerotiorum mitovirus. In silico analysis of deep RNA sequencing results showed that a majority of the A. fumigatus strains used here were infected with mycoviruses. Four novel A. fumigatus RNA mycoviruses could be identified: two different Aspergillus fumigatus narna-like viruses, one Aspergillus fumigatus partitivirus, and one Aspergillus fumigatus mitovirus.

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Characterization of two novel mycoviruses from Penicillium digitatum and the related fungicide resistance analysis

Cited by 57 publications

References 54 publications

Molecular Characterization of a Novel Ourmia-Like Virus Infecting Phoma matteucciicola

Molecular Characterization of a Novel Ourmia-Like Virus Infecting Phoma matteucciicola

Discovery of new mycoviral genomes within publicly available fungal transcriptomic datasets

Discovery and characterization of novel Aspergillus fumigatus mycoviruses

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