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:10.3390/v11030211

Cited by 8 publications

(4 citation statements)

References 35 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In addition, these phylogenies revealed a robustly supported relationship between chuvirus EVEs in the Tibetan frog (Nanorana parkeri) and zebrafish (Danio rerio) genomes. Taken together, these results provide evidence for the existence of numerous diverse lineages of chuviruses in vertebrates, adding to recent evidence for the presence of exogenous chuviruses in marsupials [64].…”

Section: Eves Derived From Viruses With Single-stranded Negative Sens...supporting

confidence: 75%

See 1 more Smart Citation

A novel approach to exploring the dark genome and its application to mapping of the vertebrate virus fossil record

Blanco-Melo,

Campbell,

Zhu

et al. 2024

Genome Biol

View full text Add to dashboard Cite

Background Genomic regions that remain poorly understood, often referred to as the dark genome, contain a variety of functionally relevant and biologically informative features. These include endogenous viral elements (EVEs)—virus-derived sequences that can dramatically impact host biology and serve as a virus fossil record. In this study, we introduce a database-integrated genome screening (DIGS) approach to investigate the dark genome in silico, focusing on EVEs found within vertebrate genomes. Results Using DIGS on 874 vertebrate genomes, we uncover approximately 1.1 million EVE sequences, with over 99% originating from endogenous retroviruses or transposable elements that contain EVE DNA. We show that the remaining 6038 sequences represent over a thousand distinct horizontal gene transfer events across 10 virus families, including some that have not previously been reported as EVEs. We explore the genomic and phylogenetic characteristics of non-retroviral EVEs and determine their rates of acquisition during vertebrate evolution. Our study uncovers novel virus diversity, broadens knowledge of virus distribution among vertebrate hosts, and provides new insights into the ecology and evolution of vertebrate viruses. Conclusions We comprehensively catalog and analyze EVEs within 874 vertebrate genomes, shedding light on the distribution, diversity, and long-term evolution of viruses and reveal their extensive impact on vertebrate genome evolution. Our results demonstrate the power of linking a relational database management system to a similarity search-based screening pipeline for in silico exploration of the dark genome.

show abstract

Section: Eves Derived From Viruses With Single-stranded Negative Sens...supporting

confidence: 75%

“…These issues, combined with rapid data accumulation, coverage limitations, and assembly errors-make generation of complete and accurate annotations difficult [83,85]. Consequently, labor-intensive manual genome annotation remains important [64,78], and most published whole genome are comprised of genomic "dark matter".…”

Section: Discussionmentioning

confidence: 99%

A novel approach to exploring the dark genome and its application to mapping of the vertebrate virus fossil record

Blanco-Melo,

Campbell,

Zhu

et al. 2024

Genome Biol

View full text Add to dashboard Cite

show abstract

“…To date, metagenomic virus discovery studies have been conducted for several native and invasive species in Australia including rabbits, 36 foxes, 37 bats, 38 dasyurids (marsupial carnivores), 39 koalas 40 and shorebirds, 41 but expanding the number of species studied and the geographical range of these studies is needed to understand the dynamics of the Australian 'virome'. It is particularly important to conduct unbiased metagenomic screening of domestic species in frequent contact with humans, wildlife at the human-animal interface, and common invertebrate vectors of disease (e.g.…”

Section: The Threat Of Animal Reservoirs In Australiamentioning

confidence: 99%

Emerging viral threats in Australia

Harvey,

Foster

2024

Microbiol. Aust.

View full text Add to dashboard Cite

Pathogenic viruses pose significant threats to human health. Consequently, it is important to consider the mechanisms by which viruses might emerge and spread both within Australia and internationally. Australia is relatively isolated from major global population centres, reachable only by international flight or long boat journey (with the exception of the most southern and eastern parts of Indonesia). This isolation, coupled with the island nature of Australia, allows broadly effective interventions to be put in place to minimise the effect of viruses circulating internationally. However, the threats posed by virus transmission emerging from within Australia, including from novel animal reservoirs as a consequence of anthropogenic activities, warrant investigation. Here we discuss the current emerging viral threats to Australia and the likelihood of a virus emerging from a domestic reservoir. We also discuss the importance of virus discovery methods for understanding the diversity and ecology of viruses in our invasive and native wildlife populations.

show abstract

“…This effect is not limited to insects. Harvey et al (2019) also found that presence of a novel picorna-like virus (Burpengary virus) is negatively associated with Chlamydial disease in the Koala (Harvey et al, 2019).…”

mentioning

confidence: 96%

Identification of a Novel Picorna-like Virus in Coconut Rhinoceros Beetles (Oryctes rhinoceros)

Etebari

Shelomi

Furlong

2020

Preprint

View full text Add to dashboard Cite

A novel Picorna-like virus, tentatively named Oryctes rhinoceros Picorna-like virus 1 (OrPV1), was identified in coconut rhinoceros beetle (Oryctes rhinoceros) larvae in Taiwan. The complete genome sequence consisted of 9,665 nucleotides with a polyA tail and included one open reading frame. Conserved structural domains such as Picornavirus capsid protein, RNA helicase, Peptidase and RNA-dependent RNA polymerase (RdRp) were identified through Pfam domain searches. The genome shares approximately 28% identity with other unclassified picornavirals that infect honey bees (Darwin bee virus 2, Bundaberg bee virus 5, and Sacbrood virus) and a recently reported virus from Asian lady beetle (Harmonia axyridis virus 1). We did not detect this virus in any other geographical populations of O. rhinoceros collected from the South Pacific Islands and the Philippines. Analysis of the deduced RdRp amino acid sequences showed that the virus clustered with other Picorna-like viruses and separated from other members of family Dicistroviridae and Iflaviridae.

show abstract

Identification of A Novel Picorna-Like Virus, Burpengary Virus, that is Negatively Associated with Chlamydial Disease in the Koala

Cited by 8 publications

References 35 publications

A novel approach to exploring the dark genome and its application to mapping of the vertebrate virus fossil record

A novel approach to exploring the dark genome and its application to mapping of the vertebrate virus fossil record

Emerging viral threats in Australia

Identification of a Novel Picorna-like Virus in Coconut Rhinoceros Beetles (Oryctes rhinoceros)

Contact Info

Product

Resources

About