ArticleScientific reports2019
Sensitivity and specificity of metatranscriptomics as an arbovirus surveillance tool.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 43 citations in OpenAlex.
- Integrating metagenomics and metatranscriptomics intoThe Journal of general virology · 2026Review
- Horizons of the Future: Preparedness and Response.Current topics in microbiology and immunology · 2026Review
- "The Perfect Swarm" - Flooding across Northern Victoria leads to intensified mosquito breeding and subsequent re-emergence and transmission of Murray Valley encephalitis virus during the 2022-23 mosquito season.PLoS neglected tropical diseases · 2025Article
- Development of a Rapid Surveillance System for Ross River Virus in Mosquitoes Through Reverse-Transcription Loop-Mediated Isothermal Amplification (RT-LAMP).Transboundary and emerging diseases · 2025Article
- The Australian Biosecurity Genomic Database: a new resource for high-throughput sequencing analysis based on the National Notifiable Disease List of Terrestrial Animals.Database : the journal of biological databases and curation · 2024Article
- Tips and tools to obtain and assess mosquito viromes.Archives of microbiology · 2024Review
- "Smart markets": harnessing the potential of new technologies for endemic and emerging infectious disease surveillance in traditional food markets.Journal of virology · 2024Review
- Long-term co-circulation of multiple arboviruses in southeast Australia revealed by xeno-monitoring and viral whole-genome sequencing.Virus evolution · 2024Article
- A tale of caution: How endogenous viral elements affect virus discovery in transcriptomic data.Virus evolution · 2024Article
- Fine-scale genomic tracking of Ross River virus using nanopore sequencing.Parasites & vectors · 2023Article
- An integrated public health response to an outbreak of Murray Valley encephalitis virus infection during the 2022-2023 mosquito season in Victoria.Frontiers in public health · 2023Review
- Harnessing artificial intelligence to enhance key surveillance and response measures for arbovirus disease outbreaks: the exemplar of Australia.Frontiers in microbiology · 2023Article
- Vector-virus interaction affects viral loads and co-occurrence.BMC biology · 2022Article
- Enhanced Arbovirus Surveillance with High-Throughput Metatranscriptomic Processing of Field-Collected Mosquitoes.Viruses · 2022Article
- Ecosystem-specific microbiota and microbiome databases in the era of big data.Environmental microbiome · 2022Review
- Profiling of RNA Viruses in Biting Midges (mSphere · 2021Article
- Quantitative PCR assay for the detection of Aedes vigilax in mosquito trap collections containing large numbers of morphologically similar species and phylogenetic analysis of specimens collected in Victoria, Australia.Parasites & vectors · 2021Article
- Review
- A Metatranscriptomics Survey of Microbial Diversity on Surfaces Post-Intervention of cleanSURFACES® Technology in an Intensive Care Unit.Frontiers in cellular and infection microbiology · 2021Article
- A Novel Multiplex RT-PCR Assay for Simultaneous Detection of Dengue and Chikungunya Viruses.International journal of molecular sciences · 2020Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The ability to identify all the viruses within a sample makes metatranscriptomic sequencing an attractive tool to screen mosquitoes for arboviruses. Practical application of this technique, however, requires a clear understanding of its analytical sensitivity and specificity. To assess this, five dilutions (1:1, 1:20, 1:400, 1:8,000 and 1:160,000) of Ross River virus (RRV) and Umatilla virus (UMAV) isolates were spiked into subsamples of a pool of 100 Culex australicus mosquitoes. The 1:1 dilution represented the viral load of one RRV-infected mosquito in a pool of 100 mosquitoes. The subsamples underwent nucleic acid extraction, mosquito-specific ribosomal RNA depletion, and Illumina HiSeq sequencing. The viral load of the subsamples was also measured using reverse transcription droplet digital PCR (RT-ddPCR) and quantitative PCR (RT-qPCR). Metatranscriptomic sequencing detected both RRV and UMAV in the 1:1, 1:20 and 1:400 subsamples. A high specificity was achieved, with 100% of RRV and 99.6% of UMAV assembled contigs correctly identified. Metatranscriptomic sequencing was not as sensitive as RT-qPCR or RT-ddPCR; however, it recovered whole genome information and detected 19 other viruses, including four first detections for Australia. These findings will assist arbovirus surveillance programs in utilising metatranscriptomics in routine surveillance activities to enhance arbovirus detection.
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