Whole Genome Analysis of Sierra Nevada Virus, a Novel Mononegavirus in the Family Nyamiviridae

Rogers, Matthew B.; Cui, Lijia; Fitch, Adam; Popov, Vsevolod L.; Rosa, A.P.A. Travassos da; Vasilakis, Nikos; Tesh, Robert B.; Ghedin, Elodie

doi:10.4269/ajtmh.14-0076

Cited by 15 publications

(13 citation statements)

References 25 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…No outgroup was selected, and the tree was resampled via bootstrap method with 1000 replicates (50% support threshold). To further characterize SCN nyami-like virus (NLV), conserved transcription initiation/termination sites were identified by aligning non-coding regions with MAAFT version 7.222 [ 23 ] (200PAM/k = 2 scoring matrix; 1.53 gap open penalty; 0.123 offset value) and selecting conserved domains with similarity to other Nyamiviridae [ 24 ]. Additionally, putative protease cleavage sites of PCN picorna-like virus (PLV) were predicted via the NetPicoRNA 1.0 Server ( http://www.cbs.dtu.dk/services/NetPicoRNA/ ) [ 25 ].…”

Section: Methodsmentioning

confidence: 99%

Novel RNA viruses within plant parasitic cyst nematodes

et al. 2018

View full text Add to dashboard Cite

The study of invertebrate–and particularly nematode–viruses is emerging with the advancement of transcriptome sequencing. Five single-stranded RNA viruses have now been confirmed within the economically important soybean cyst nematode (SCN; Heterodera glycines). From previous research, we know these viruses to be widespread in greenhouse and field populations of SCN. Several of the SCN viruses were also confirmed within clover (H. trifolii) and beet (H. schachtii) cyst nematodes. In the presented study, we sequenced the transcriptomes of several inbred SCN populations and identified two previously undiscovered viral-like genomes. Both of these proposed viruses are negative-sense RNA viruses and have been named SCN nyami-like virus (NLV) and SCN bunya-like virus (BLV). Finally, we analyzed publicly available transcriptome data of two potato cyst nematode (PCN) species, Globodera pallida and G. rostochiensis. From these data, a third potential virus was discovered and called PCN picorna-like virus (PLV). PCN PLV is a positive-sense RNA virus, and to the best of our knowledge, is the first virus described within PCN. The presence of these novel viruses was confirmed via qRT-PCR, endpoint PCR, and Sanger sequencing with the exception of PCN PLV due to quarantine restrictions on the nematode host. While much work needs to be done to understand the biological and evolutionary significance of these viruses, they offer insight into nematode ecology and the possibility of novel nematode management strategies.

show abstract

Section: Methodsmentioning

confidence: 99%

Novel RNA viruses within plant parasitic cyst nematodes

et al. 2018

View full text Add to dashboard Cite

show abstract

“…However, it was not the causative agent of EBA. SNVV has about 50% similarity to NYMV and MIDWV, and is phylogenetically related to them (Rogers et al 2014 ). It is presently unknown whether SNVV naturally infects birds or mammals.…”

Section: Mononegaviralesmentioning

confidence: 99%

Tick-Borne Viruses

et al. 2018

View full text Add to dashboard Cite

Ticks are important vectors for the transmission of pathogens including viruses. The viruses carried by ticks also known as tick-borne viruses (TBVs), contain a large group of viruses with diverse genetic properties and are concluded in two orders, nine families, and at least 12 genera. Some members of the TBVs are notorious agents causing severe diseases with high mortality rates in humans and livestock, while some others may pose risks to public health that are still unclear to us. Herein, we review the current knowledge of TBVs with emphases on the history of virus isolation and identification, tick vectors, and potential pathogenicity to humans and animals, including assigned species as well as the recently discovered and unassigned species. All these will promote our understanding of the diversity of TBVs, and will facilitate the further investigation of TBVs in association with both ticks and vertebrate hosts.

show abstract

“…The ORF III of Nyamanini virus encodes an approximately 400-aa-long protein that functions as a polymerase cofactor [23]. The putative phosphoproteins of all three members of the genus Nyavirus are predicted to contain two coiled-coil regions at the N- and C-terminal ends of the protein [7]. The hypothetical ORFIII protein of LsNSRV-1 shows no sequence similarity to these proteins.…”

Section: Discussionmentioning

confidence: 99%

Genomic characterization, phylogenetic position and in situ localization of a novel putative mononegavirus in Lepeophtheirus salmonis

et al. 2018

View full text Add to dashboard Cite

The complete genome sequence of a novel mononegavirus, Lepeophtheirus salmonis negative-stranded RNA virus 1 (LsNSRV-1), obtained from a salmonid ectoparasite, Lepeophtheirus salmonis was determined. The viral genome contains five open reading frames encoding three unknown proteins (ORF I, II and III), a putative glycoprotein (G), and a large (L) protein. Phylogenetic analysis placed LsNSRV-1 in the recently established mononegaviral family Artoviridae. LsNSRV-1 showed a prevalence of around 97% and was detected in all L. salmonis developmental stages. Viral genomic and antigenomic RNA was localized to nerve tissue, connective tissue, epithelial cells of the gut, subepidermal tissue, exocrine and cement glands, as well as the testis, vas deferens and spermatophore sac of male L. salmonis and the ovaries and oocytes of females. Viral RNA was detected in both the cytoplasm and the nucleoli of infected cells, and putative nuclear export and localization signals were found within the ORF I, III and L proteins, suggesting nuclear replication of LsNSRV-1. RNA interference (RNAi) was induced twice during development by the introduction of a double-stranded RNA fragment of ORF I, resulting in a transient knockdown of viral RNA. A large variation in the knockdown level was seen in adult males and off springs of knockdown animals, whereas the RNA level was more stable in adult females. Together with the localization of viral RNA within the male spermatophore and female oocytes and the amplification of viral RNA in developing embryos, this suggests that LsNSRV-1 is transmitted both maternally and paternally. Small amounts of viral RNA were detected at the site where chalimi were attached to the skin of Atlantic salmon ( Salmo salar ). However, as the RNAi-mediated treatment did not result in LsNSRV-1-negative offspring and the virus failed to replicate in the tested fish cell cultures, it is difficult to investigate the influence of secreted LsNSRV-1 on the salmon immune response.

show abstract

Whole Genome Analysis of Sierra Nevada Virus, a Novel Mononegavirus in the Family Nyamiviridae

Cited by 15 publications

References 25 publications

Novel RNA viruses within plant parasitic cyst nematodes

Novel RNA viruses within plant parasitic cyst nematodes

Tick-Borne Viruses

Genomic characterization, phylogenetic position and in situ localization of a novel putative mononegavirus in Lepeophtheirus salmonis

Contact Info

Product

Resources

About