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High diversity of picornaviruses in rats from different continents revealed by deep sequencing
- Source :
- Emerging Microbes & Infections, Arn Hansen, T, Mollerup, S, Nguyen, N-P, White, N E, Coghlan, M, Alquezar-Planas, D E, Joshi, T, Jensen, R H, Fridholm, H, Kjartansdóttir, K R, Mourier, T, Warnow, T, Belsham, G, Bunce, M, Willerslev, E, Nielsen, L P, Vinner, L & Hansen, A J 2016, ' High diversity of picornaviruses in rats from different continents revealed by deep sequencing ', Emerging Microbes & Infections, vol. 5, no. 8, e90 . https://doi.org/10.1038/emi.2016.90, Hansen, T A, Mollerup, S, Nam-phuong Nguyen, White, N E, Coghlan, M, Alquezar Planas, D E, Joshi, T, Jensen, R H, Fridholm, E M H, Kjartansdóttir, K R, Mourier, T, Warnow, T, Belsham, G J, Bunce, M, Willerslev, E, Nielsen, L P, Vinner, L & Hansen, A J 2016, ' High diversity of picornaviruses in rats from different continents revealed by deep sequencing ', Emerging Microbes & Infections, vol. 5, e90 . https://doi.org/10.1038/emi.2016.90
- Publication Year :
- 2016
- Publisher :
- Informa UK Limited, 2016.
-
Abstract
- Outbreaks of zoonotic diseases in humans and livestock are not uncommon, and an important component in containment of such emerging viral diseases is rapid and reliable diagnostics. Such methods are often PCR-based and hence require the availability of sequence data from the pathogen. Rattus norvegicus (R. norvegicus) is a known reservoir for important zoonotic pathogens. Transmission may be direct via contact with the animal, for example, through exposure to its faecal matter, or indirectly mediated by arthropod vectors. Here we investigated the viral content in rat faecal matter (n=29) collected from two continents by analyzing 2.2 billion next-generation sequencing reads derived from both DNA and RNA. Among other virus families, we found sequences from members of the Picornaviridae to be abundant in the microbiome of all the samples. Here we describe the diversity of the picornavirus-like contigs including near-full-length genomes closely related to the Boone cardiovirus and Theiler's encephalomyelitis virus. From this study, we conclude that picornaviruses within R. norvegicus are more diverse than previously recognized. The virome of R. norvegicus should be investigated further to assess the full potential for zoonotic virus transmission.
- Subjects :
- 0301 basic medicine
Disease reservoir
Picornavirus
Epidemiology
viruses
Denmark
Picornaviridae
Feces
viral discovery
Zoonoses
Drug Discovery
Sequencing
Phylogeny
Genetics
Cardiovirus
biology
High-Throughput Nucleotide Sequencing
General Medicine
sequencing
3. Good health
Infectious Diseases
Hong Kong
RNA, Viral
Original Article
Immunology
Genome, Viral
Microbiology
Deep sequencing
03 medical and health sciences
Viral Proteins
Phylogenetics
Virology
Genetic variation
Animals
Humans
Amino Acid Sequence
Virus classification
Disease Reservoirs
metagenomics
Picornaviridae Infections
Viral discovery
Malaysia
RNA
Genetic Variation
biology.organism_classification
cardiovirus
Rattus norvegicus
Gastrointestinal Microbiome
Rats
030104 developmental biology
picornavirus
Metagenomics
Parasitology
Subjects
Details
- ISSN :
- 22221751
- Volume :
- 5
- Issue :
- 1
- Database :
- OpenAIRE
- Journal :
- Emerging Microbes & Infections
- Accession number :
- edsair.doi.dedup.....d574b007398466df41f4b24197aef0da
- Full Text :
- https://doi.org/10.1038/emi.2016.90