Identification of a Novel Picorna-Like Virus, Burpengary Virus, That Is Negatively Associated with Chlamydial Disease in the Koala

Harvey, Erin; Madden, Danielle; Holmes, Edward C.

doi:10.20944/preprints201902.0140.v1

Cited by 2 publications

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References 20 publications

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“…2018 ; Wille et al. 2018 ; Harvey et al 2019a , b , c ). To supplement this analysis, we mined the sequence read archive (SRA) database for hepaci- and pegi-like virus sequences.…”

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confidence: 99%

Novel hepaci- and pegi-like viruses in native Australian wildlife and non-human primates

et al. 2020

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The Flaviviridae family of positive-sense RNA viruses contains important pathogens of humans and other animals, including Zika virus, dengue virus and hepatitis C virus. The Flaviviridae are currently divided into four genera - Hepacivirus, Pegivirus, Pestivirus and Flavivirus – each with a diverse host range. Members of the genus Hepacivirus are associated with an array of animal species, including humans, non-human primates, other mammalian species, as well as birds and fish, while the closely related pegiviruses have been identified in a variety of mammalian taxa, also including humans. Using a combination of total RNA and whole genome sequencing we identified four novel hepaci-like viruses and one novel variant of a known hepacivirus in five species of Australian wildlife. The hosts infected comprised native Australian marsupials and birds, as well as a native gecko (Gehyra lauta). From these data we identified a distinct marsupial clade of hepaci-like viruses that also included an engorged Ixodes holocyclus tick collected while feeding on Australian long-nosed bandicoots (Perameles nasuta). Distinct lineages of hepaci-like viruses associated with geckos and birds were also identified. By mining the short-read archive (SRA) database we similarly identified three new hepaci-like viruses from avian and primate hosts, as well as two novel pegi-like viruses associated with primates. The phylogenetic history of the hepaci- and pegi-like viruses as a whole, combined with co-phylogenetic analysis, provided support for virus-host co-divergence over the course of vertebrate evolution, although with frequent cross-species virus transmission. Overall, our work highlights the diversity of the Hepacivirus and Pegivirus genera as well as the uncertain phylogenetic distinction between.

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“…2018 ; Wille et al. 2018 ; Harvey et al 2019a , b , c ). To supplement this analysis, we mined the sequence read archive (SRA) database for hepaci- and pegi-like virus sequences.…”

Section: Introductionmentioning

confidence: 99%

Novel hepaci- and pegi-like viruses in native Australian wildlife and non-human primates

et al. 2020

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“…Herein, we used a bulk RNA-sequencing (meta-transcriptomic) approach to identify additional novel hepaciviruses in Australian wildlife and determine their abundance. This approach has previously proven successful in an Australian context, identifying a variety of viruses in Australian wildlife, including native Australian and invasive species [19,[38][39][40][41][42][43]. To supplement this analysis, we mined the sequence read archive (SRA) database for hepacivirus-like sequences.…”

Section: Introductionmentioning

confidence: 99%

Metagenomic identification of diverse animal hepaciviruses and pegiviruses

Porter

Pettersson

Chang

et al. 2020

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29 30 The RNA virus family Flaviviridae harbours several important pathogens of humans and 31 other animals, including Zika virus, dengue virus and hepatitis C virus. The Flaviviridae are 32 currently divided into four genera -Hepacivirus, Pegivirus, Pestivirus and Flavivirus -each 33 of which have a diverse host range. Members of the genus Hepacivirus are associated with 34 a diverse array of animal species, including humans and non-human primates, other 35 mammalian species, as well as birds and fish, while the closely related pegiviruses have 36 been identified in a variety of mammalian taxa including humans. Using a combination of 37 meta-transcriptomic and whole genome sequencing we identified four novel hepaciviruses 38 and one novel variant of a known virus, in five species of native Australian wildlife, 39 expanding our knowledge of the diversity in this important group of RNA viruses. The 40 infected hosts comprised native Australian marsupials and birds, as well as a native gecko 41 (Gehyra lauta). The addition of these novel viruses led to the identification of a distinct 42 marsupial clade within the hepacivirus phylogeny that also included an engorged Ixodes 43 holocyclus tick collected while feeding on Australian long-nosed bandicoots (Perameles 44 nasuta). Gecko and avian associated hepacivirus lineages were also identified. In addition, 45 by mining the short-read archive (SRA) database we identified another five novel members 46 of Flaviviridae, comprising three new hepaciviruses from avian and primate hosts, as well as 47 two primate-associated pegiviruses. The large-scale phylogenetic analysis of these novel 48 hepacivirus and pegivirus genomes provides additional support for virus-host co-49 divergence over evolutionary time-scales.50 51 As the vast majority of emerging infectious disease in humans are caused by viral zoonoses 52 [1], the identification and characterization of animal viruses is critical for identifying potential 53 disease reservoirs and providing models for the study of human viruses [2,3]. Two related 54 groups of viruses that have recently received considerable attention are the genera 55 Hepacivirus and Pegivirus from the family Flaviviridae of single-strand positive-sense RNA 56 viruses. Hepaciviruses infect a broad range of vertebrate hosts, including humans, non-57 human primates [4,5], and a variety of other mammals including rodents [6-10], horses [11], 58 bats [12], and cows [13,14]. Hepaciviruses have also been detected in birds [15, 16], fish 59 and a variety of other vertebrates [17, 18]. Additionally, two hepacivirus-like sequences 60 have been identified in arthropods (a mosquito and tick), although their true host is 61 uncertain [19, 20]. Despite such a wide diversity of animal hosts, hepaciviruses remain 62 synonymous with liver infection, with the most notable example being human hepatitis C 63 virus (HCV). While some non-primate hepaciviruses have been well characterized, 64 particularly equine hepacivirus (also known as Hepacivirus AK, or non-primate hepac...

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Identification of a Novel Picorna-Like Virus, Burpengary Virus, That Is Negatively Associated with Chlamydial Disease in the Koala

Cited by 2 publications

References 20 publications

Novel hepaci- and pegi-like viruses in native Australian wildlife and non-human primates

Novel hepaci- and pegi-like viruses in native Australian wildlife and non-human primates

Metagenomic identification of diverse animal hepaciviruses and pegiviruses

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