Crypsis and convergence: integrative taxonomic revision of the <i>Gehyra australis</i> group (Squamata: Gekkonidae) from northern Australia

Oliver, Paul M.; Prasetya, Audrey Miranda; Tedeschi, Leonardo G.; Fenker, Jéssica; Ellis, Ryan J.; Moritz, Craig

doi:10.7717/peerj.7971

Cited by 14 publications

(20 citation statements)

References 63 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Gecko hepaci-like virus (GHV) (RNASeq library VERT7) was obtained from a liver sample (No. CCM0247) of a seemingly healthy gecko ( Gehyra lauta ) collected at West Leichardt Station, Queensland in 2013 ( Oliver et al. 2020 ).…”

Section: Methodsmentioning

confidence: 99%

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

et al. 2020

Self Cite

View full text Add to dashboard Cite

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.

show abstract

Section: Methodsmentioning

confidence: 99%

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

et al. 2020

Self Cite

View full text Add to dashboard Cite

show abstract

“…To identify the exact host species, we screened each individual species sample separately using RT-PCR and Sanger sequencing. As a result, we detected the presence of the novel Lauta virus RdRp sequence in liver tissue of G. lauta (paratype QM J96622) ( Figure S1), a gecko species native to north-western Queensland and the north-eastern Northern Territory in Australia [35].…”

Section: Host Association and In Vitro Validationmentioning

confidence: 96%

A Divergent Articulavirus in an Australian Gecko Identified Using Meta-Transcriptomics and Protein Structure Comparisons

Ortiz-Báez

Eden

Moritz

et al. 2020

Viruses

Self Cite

View full text Add to dashboard Cite

The discovery of highly divergent RNA viruses is compromised by their limited sequence similarity to known viruses. Evolutionary information obtained from protein structural modelling offers a powerful approach to detect distantly related viruses based on the conservation of tertiary structures in key proteins such as the RNA-dependent RNA polymerase (RdRp). We utilised a template-based approach for protein structure prediction from amino acid sequences to identify distant evolutionary relationships among viruses detected in meta-transcriptomic sequencing data from Australian wildlife. The best predicted protein structural model was compared with the results of similarity searches against protein databases. Using this combination of meta-transcriptomics and protein structure prediction we identified the RdRp (PB1) gene segment of a divergent negative-sense RNA virus, denoted Lauta virus (LTAV), in a native Australian gecko (Gehyra lauta). The presence of this virus was confirmed by PCR and Sanger sequencing. Phylogenetic analysis revealed that Lauta virus likely represents a newly described genus within the family Amnoonviridae, order Articulavirales, that is most closely related to the fish virus Tilapia tilapinevirus (TiLV). These findings provide important insights into the evolution of negative-sense RNA viruses and structural conservation of the viral replicase among members of the order Articulavirales.

show abstract

“…The magpie lark and pelican were handled under a series of NSW Office of Environment The samples analysed here were collected from a variety of sources (Table 1). Gecko hepacivirus (RNASeq library VERT7) was obtained from a liver sample (#CCM0247) of a seemingly healthy gecko (Gehyra lauta) collected at West Leichardt Station, Queensland in 2013 [45]. Pelican hepacivirus (RNASeq library VERT5) was obtained from the liver (Australian Registry of Wildlife Health #9381.1) of an Australian pelican (Pelecanus conspicillatus) collected at Blackwall Bay, New South Wales (NSW) in 2013.…”

Section: Animal Ethicsmentioning

confidence: 99%

Metagenomic identification of diverse animal hepaciviruses and pegiviruses

Porter

Pettersson

Chang

et al. 2020

Preprint

Self Cite

View full text Add to dashboard Cite

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...

show abstract

Crypsis and convergence: integrative taxonomic revision of the Gehyra australis group (Squamata: Gekkonidae) from northern Australia

Cited by 14 publications

References 63 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

A Divergent Articulavirus in an Australian Gecko Identified Using Meta-Transcriptomics and Protein Structure Comparisons

Metagenomic identification of diverse animal hepaciviruses and pegiviruses

Contact Info

Product

Resources

About