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Erschienen in: Archives of Virology 9/2019

22.06.2019 | Annotated Sequence Record

Novel smacoviruses identified in the faeces of two wild felids: North American bobcat and African lion

verfasst von: Simona Kraberger, Laurel Serieys, Nicolas Fountain-Jones, Craig Packer, Seth Riley, Arvind Varsani

Erschienen in: Archives of Virology | Ausgabe 9/2019

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Abstract

Smacoviruses are small circular single-stranded DNA viruses that appear to be prevalent in faeces of a range of animals and have also been found in a few insect species. In this study, we report the first viral genomes from faeces of free-roaming wild felids on two continents. Two smacoviruses were recovered from the faeces of two North American bobcats (Lynx rufus), and one was recovered from an African lion (Panthera leo). All three genomes are genetically different, sharing 59-69% genome-wide sequence identity to other smacoviruses. These are the first full smacovirus genome sequences associated with a large top-end feline predator, and their presence in these samples suggests that feline faeces are a natural niche for the organisms that these viruses infect.
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Literatur
1.
Zurück zum Zitat Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD (2012) SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 19:455–477CrossRefPubMedPubMedCentral Bankevich A, Nurk S, Antipov D, Gurevich AA, Dvorkin M, Kulikov AS, Lesin VM, Nikolenko SI, Pham S, Prjibelski AD (2012) SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 19:455–477CrossRefPubMedPubMedCentral
2.
Zurück zum Zitat Beatty JA, Troyer RM, Carver S, Barrs VR, Espinasse F, Conradi O, Stutzman-Rodriguez K, Chan CC, Tasker S, Lappin MR (2014) Felis catus gammaherpesvirus 1; a widely endemic potential pathogen of domestic cats. Virology 460:100–107CrossRefPubMed Beatty JA, Troyer RM, Carver S, Barrs VR, Espinasse F, Conradi O, Stutzman-Rodriguez K, Chan CC, Tasker S, Lappin MR (2014) Felis catus gammaherpesvirus 1; a widely endemic potential pathogen of domestic cats. Virology 460:100–107CrossRefPubMed
3.
Zurück zum Zitat Blinkova O, Victoria J, Li Y, Keele BF, Sanz C, Ndjango J-BN, Peeters M, Travis D, Lonsdorf EV, Wilson ML, Pusey AE, Hahn BH, Delwart EL (2010) Novel circular DNA viruses in stool samples of wild-living chimpanzees. J Gen Virol 91:74–86CrossRefPubMedPubMedCentral Blinkova O, Victoria J, Li Y, Keele BF, Sanz C, Ndjango J-BN, Peeters M, Travis D, Lonsdorf EV, Wilson ML, Pusey AE, Hahn BH, Delwart EL (2010) Novel circular DNA viruses in stool samples of wild-living chimpanzees. J Gen Virol 91:74–86CrossRefPubMedPubMedCentral
4.
Zurück zum Zitat Cavalcante L, Muniz C, Jia H, Augusto A, Troccoli F, Medeiros S, Dias C, Switzer W, Soares M, Santos A (2018) Clinical and molecular features of feline foamy virus and feline leukemia virus co-infection in naturally-infected cats. Viruses 10:702CrossRefPubMedCentral Cavalcante L, Muniz C, Jia H, Augusto A, Troccoli F, Medeiros S, Dias C, Switzer W, Soares M, Santos A (2018) Clinical and molecular features of feline foamy virus and feline leukemia virus co-infection in naturally-infected cats. Viruses 10:702CrossRefPubMedCentral
5.
Zurück zum Zitat Chiu ES, Kraberger S, Cunningham M, Cusack L, Roelke M, VandeWoude S (2019) Multiple introductions of domestic cat feline leukemia virus in endangered florida panthers. Emerg Infect Dis 25:92CrossRefPubMedPubMedCentral Chiu ES, Kraberger S, Cunningham M, Cusack L, Roelke M, VandeWoude S (2019) Multiple introductions of domestic cat feline leukemia virus in endangered florida panthers. Emerg Infect Dis 25:92CrossRefPubMedPubMedCentral
6.
Zurück zum Zitat Darriba D, Taboada GL, Doallo R, Posada D (2011) ProtTest 3: fast selection of best-fit models of protein evolution. Bioinformatics 27:1164–1165CrossRefPubMed Darriba D, Taboada GL, Doallo R, Posada D (2011) ProtTest 3: fast selection of best-fit models of protein evolution. Bioinformatics 27:1164–1165CrossRefPubMed
7.
Zurück zum Zitat Díez-Villaseñor C, Rodriguez-Valera F (2019) CRISPR analysis suggests that small circular single-stranded DNA smacoviruses infect Archaea instead of humans. Nat Commun 10:294CrossRefPubMedPubMedCentral Díez-Villaseñor C, Rodriguez-Valera F (2019) CRISPR analysis suggests that small circular single-stranded DNA smacoviruses infect Archaea instead of humans. Nat Commun 10:294CrossRefPubMedPubMedCentral
8.
Zurück zum Zitat Guindon S, Dufayard J-F, Lefort V, Anisimova M, Hordijk W, Gascuel O (2010) New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 59:307–321CrossRefPubMed Guindon S, Dufayard J-F, Lefort V, Anisimova M, Hordijk W, Gascuel O (2010) New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 59:307–321CrossRefPubMed
9.
Zurück zum Zitat Jarošová V, Hrazdilová K, Filipejová Z, Schánilec P, Celer V (2015) Whole genome sequencing and phylogenetic analysis of feline anelloviruses. Infect Genet Evol 32:130–134CrossRefPubMed Jarošová V, Hrazdilová K, Filipejová Z, Schánilec P, Celer V (2015) Whole genome sequencing and phylogenetic analysis of feline anelloviruses. Infect Genet Evol 32:130–134CrossRefPubMed
10.
Zurück zum Zitat Katoh K, Misawa K, Ki Kuma, Miyata T (2002) MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res 30:3059–3066CrossRefPubMedPubMedCentral Katoh K, Misawa K, Ki Kuma, Miyata T (2002) MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res 30:3059–3066CrossRefPubMedPubMedCentral
11.
Zurück zum Zitat Kehl T, Bleiholder A, Roßmann F, Rupp S, Lei J, Lee J, Boyce W, Vickers W, Crooks K, VandeWoude S, Löchelt M (2013) Complete genome sequences of two novel puma concolor foamy viruses from california. Genome Announcements 1:e00201–e00212CrossRefPubMedCentral Kehl T, Bleiholder A, Roßmann F, Rupp S, Lei J, Lee J, Boyce W, Vickers W, Crooks K, VandeWoude S, Löchelt M (2013) Complete genome sequences of two novel puma concolor foamy viruses from california. Genome Announcements 1:e00201–e00212CrossRefPubMedCentral
12.
Zurück zum Zitat Kraberger S, Waits K, Ivan J, Newkirk E, VandeWoude S, Varsani A (2018) Identification of circular single-stranded DNA viruses in faecal samples of Canada lynx (Lynx canadensis), moose (Alces alces) and snowshoe hare (Lepus americanus) inhabiting the Colorado San Juan Mountains. Infect Genet Evol 64:1–8CrossRefPubMed Kraberger S, Waits K, Ivan J, Newkirk E, VandeWoude S, Varsani A (2018) Identification of circular single-stranded DNA viruses in faecal samples of Canada lynx (Lynx canadensis), moose (Alces alces) and snowshoe hare (Lepus americanus) inhabiting the Colorado San Juan Mountains. Infect Genet Evol 64:1–8CrossRefPubMed
14.
Zurück zum Zitat Muhire BM, Varsani A, Martin DP (2014) SDT: a virus classification tool based on pairwise sequence alignment and identity calculation. PLoS One 9:e108277CrossRefPubMedPubMedCentral Muhire BM, Varsani A, Martin DP (2014) SDT: a virus classification tool based on pairwise sequence alignment and identity calculation. PLoS One 9:e108277CrossRefPubMedPubMedCentral
17.
Zurück zum Zitat Steel O, Kraberger S, Sikorski A, Young LM, Catchpole RJ, Stevens AJ, Ladley JJ, Coray DS, Stainton D, Dayaram A, Julian L, van Bysterveldt K, Varsani A (2016) Circular replication-associated protein encoding DNA viruses identified in the faecal matter of various animals in New Zealand. Infect Genet Evol 43:151–164CrossRefPubMed Steel O, Kraberger S, Sikorski A, Young LM, Catchpole RJ, Stevens AJ, Ladley JJ, Coray DS, Stainton D, Dayaram A, Julian L, van Bysterveldt K, Varsani A (2016) Circular replication-associated protein encoding DNA viruses identified in the faecal matter of various animals in New Zealand. Infect Genet Evol 43:151–164CrossRefPubMed
18.
Zurück zum Zitat Troyer RM, Beatty JA, Stutzman-Rodriguez KR, Carver S, Lozano CC, Lee JS, Lappin MR, Riley SP, Serieys LE, Logan KA (2014) Novel gammaherpesviruses in North American domestic cats, bobcats and pumas: identification, prevalence and risk factors. J Virol 88(8):3914–3924CrossRefPubMedPubMedCentral Troyer RM, Beatty JA, Stutzman-Rodriguez KR, Carver S, Lozano CC, Lee JS, Lappin MR, Riley SP, Serieys LE, Logan KA (2014) Novel gammaherpesviruses in North American domestic cats, bobcats and pumas: identification, prevalence and risk factors. J Virol 88(8):3914–3924CrossRefPubMedPubMedCentral
19.
Zurück zum Zitat Varsani A, Krupovic M (2018) Smacoviridae: a new family of animal-associated single-stranded DNA viruses. Arch Virol 163(7):2005–2015CrossRefPubMed Varsani A, Krupovic M (2018) Smacoviridae: a new family of animal-associated single-stranded DNA viruses. Arch Virol 163(7):2005–2015CrossRefPubMed
20.
Zurück zum Zitat Winkler IG, Löchelt M, Flower RLP (1999) Epidemiology of feline foamy virus and feline immunodeficiency virus infections in domestic and feral cats: a seroepidemiological study. J Clin Microbiol 37:2848–2851PubMedPubMedCentral Winkler IG, Löchelt M, Flower RLP (1999) Epidemiology of feline foamy virus and feline immunodeficiency virus infections in domestic and feral cats: a seroepidemiological study. J Clin Microbiol 37:2848–2851PubMedPubMedCentral
21.
Zurück zum Zitat Zhang W, Wang H, Wang Y, Liu Z, Li J, Guo L, Yang S, Shen Q, Zhao X, Cui L, Hua X (2016) Identification and genomic characterization of a novel species of feline anellovirus. Virol J 13:146CrossRefPubMedPubMedCentral Zhang W, Wang H, Wang Y, Liu Z, Li J, Guo L, Yang S, Shen Q, Zhao X, Cui L, Hua X (2016) Identification and genomic characterization of a novel species of feline anellovirus. Virol J 13:146CrossRefPubMedPubMedCentral
Metadaten
Titel
Novel smacoviruses identified in the faeces of two wild felids: North American bobcat and African lion
verfasst von
Simona Kraberger
Laurel Serieys
Nicolas Fountain-Jones
Craig Packer
Seth Riley
Arvind Varsani
Publikationsdatum
22.06.2019
Verlag
Springer Vienna
Erschienen in
Archives of Virology / Ausgabe 9/2019
Print ISSN: 0304-8608
Elektronische ISSN: 1432-8798
DOI
https://doi.org/10.1007/s00705-019-04329-3

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