ArticleFrontiers in microbiology2017
Metagenomic Sequencing for Surveillance of Food- and Waterborne Viral Diseases.
Article in Frontiers in microbiology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers, 2 of them syntheses that pooled it.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
33 citing papers in PubMed, 2 syntheses or guidelines pooled it, 89 citations in OpenAlex.
- Library Preparation and Sequencing Platform Introduce Bias in Metagenomic-Based Characterizations of Microbiomes.Microbiology spectrum · 2022Pooled it
- Virus Metagenomics in Farm Animals: A Systematic Review.Viruses · 2020Pooled it
- Evaluation of two virome probe hybridization capture panels for food safety surveillance.Virology journal · 2026Article
- Metagenomic analysis and proteins prediction of emerging pathogens in artisanal cheese.Molecular diversity · 2025Article
- Unveiling the global urban virome through wastewater metagenomics.Nature communications · 2025Article
- The potential of long-term wastewater-based surveillance to predict COVID-19 waves peak in Mexico.Water environment research : a research publication of the Water Environment Federation · 2025Article
- Biosensors for waterborne virus detection: Challenges and strategies.Journal of pharmaceutical analysis · 2023Review
- Gut Phageome-An Insight into the Role and Impact of Gut Microbiome and Their Correlation with Mammal Health and Diseases.Microorganisms · 2023Review
- Searching for a Reliable Viral Indicator of Faecal Pollution in Aquatic Environments.Journal of microbiology (Seoul, Korea) · 2023Review
- Viral Metagenomics as a Tool to Track Sources of Fecal Contamination: A One Health Approach.Viruses · 2023Review
- Clinical manifestations of human monkeypox infection and implications for outbreak strategy.Health sciences review (Oxford, England) · 2022Review
- Hepatitis E Virus Seroprevalence and Associated Risk Factors in Pregnant Women Attending Antenatal Consultations in Senegal.Viruses · 2022Article
- Temporal variations of human and animalFrontiers in microbiology · 2022Article
- Prevalence and phylogenetic analysis of human enteric emerging viruses in porcine stool samples in the Republic of Korea.Frontiers in veterinary science · 2022Article
- NGS Techniques Reveal a High Diversity of RNA Viral Pathogens and Papillomaviruses in Fresh Produce and Irrigation Water.Foods (Basel, Switzerland) · 2021Article
- Coronavirus in water media: Analysis, fate, disinfection and epidemiological applications.Journal of hazardous materials · 2021Review
- Human and Animal RNA Virus Diversity Detected by Metagenomics in Cameroonian Clams.Frontiers in microbiology · 2021Article
- Setting a baseline for global urban virome surveillance in sewage.Scientific reports · 2020Article
- Nine-Year Nationwide Environmental Surveillance of Hepatitis E Virus in Urban Wastewaters in Italy (2011-2019).International journal of environmental research and public health · 2020Article
- Enteric Virome and Carcinogenesis in the Gut.Digestive diseases and sciences · 2020Review
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A plethora of viruses can be transmitted by the food- and waterborne route. However, their recognition is challenging because of the variety of viruses, heterogeneity of symptoms, the lack of awareness of clinicians, and limited surveillance efforts. Classical food- and waterborne viral disease outbreaks are mainly caused by caliciviruses, but the source of the virus is often not known and the foodborne mode of transmission is difficult to discriminate from human-to-human transmission. Atypical food- and waterborne viral disease can be caused by viruses such as hepatitis A and hepatitis E. In addition, a source of novel emerging viruses with a potential to spread via the food- and waterborne route is the repeated interaction of humans with wildlife. Wildlife-to-human adaptation may give rise to self- limiting outbreaks in some cases, but when fully adjusted to the human host can be devastating. Metagenomic sequencing has been investigated as a promising solution for surveillance purposes as it detects all viruses in a single protocol, delivers additional genomic information for outbreak tracing, and detects novel unknown viruses. Nevertheless, several issues must be addressed to apply metagenomic sequencing in surveillance. First, sample preparation is difficult since the genomic material of viruses is generally overshadowed by host- and bacterial genomes. Second, several data analysis issues hamper the efficient, robust, and automated processing of metagenomic data. Third, interpretation of metagenomic data is hard, because of the lack of general knowledge of the virome in the food chain and the environment. Further developments in virus-specific nucleic acid extraction methods, bioinformatic data processing applications, and unifying data visualization tools are needed to gain insightful surveillance knowledge from suspect food samples.
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