ReviewFrontiers in microbiology2017
Food Safety in the Age of Next Generation Sequencing, Bioinformatics, and Open Data Access.
Review 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 28 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
28 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Identifying the most important facilitators of open research data sharing and reuse in Epidemiology: A mixed-methods study.PloS one · 2024Pooled it
- Biocomputing networks for distributed monitoring of foodborne pathogen outbreaks using engineered bacterial sensors.Annals of medicine and surgery (2012) · 2025Article
- Foodborne bacterial pathogens: genome-based approaches for enduring and emerging threats in a complex and changing world.Nature reviews. Microbiology · 2024Review
- Impact of wet-lab protocols on quality of whole-genome short-read sequences from foodborne microbial pathogens.Frontiers in microbiology · 2023Article
- Identification and characterization ofFrontiers in microbiology · 2022Article
- Whole-genome sequencing and ad hoc shared genome analysis of Staphylococcus aureus isolates from a New Zealand primary school.Scientific reports · 2021Article
- Complete Whole Genome Sequences ofMicroorganisms · 2021Article
- A qualitative program evaluation of the Publicly Available International Foodborne Outbreak Database.Canada communicable disease report = Releve des maladies transmissibles au Canada · 2021Article
- Whole-genome sequencing as part of national and international surveillance programmes for antimicrobial resistance: a roadmap.BMJ global health · 2020Review
- Ultraplexing: increasing the efficiency of long-read sequencing for hybrid assembly with k-mer-based multiplexing.Genome biology · 2020Article
- Poultry processing and the application of microbiome mapping.Poultry science · 2020Review
- Direct Metatranscriptome RNA-seq and Multiplex RT-PCR Amplicon Sequencing on Nanopore MinION - Promising Strategies for Multiplex Identification of Viable Pathogens in Food.Frontiers in microbiology · 2020Article
- Prevention and Control of Foodborne Diseases in Middle-East North African Countries: Review of National Control Systems.International journal of environmental research and public health · 2019Review
- Whole genome sequencing and metagenomics for outbreak investigation, source attribution and risk assessment of food-borne microorganisms.EFSA journal. European Food Safety Authority · 2019Article
- Article
- Investing in Food Safety for Developing Countries: Opportunities and Challenges in Applying Whole-Genome Sequencing for Food Safety Management.Foodborne pathogens and disease · 2019Review
- The use of next generation sequencing for improving food safety: Translation into practice.Food microbiology · 2019Review
- Characterization of Emetic and DiarrhealFrontiers in microbiology · 2019Article
- Article
- Integrating Whole-Genome Sequencing Data Into Quantitative Risk Assessment of Foodborne Antimicrobial Resistance: A Review of Opportunities and Challenges.Frontiers in microbiology · 2019Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Public health labs and food regulatory agencies globally are embracing whole genome sequencing (WGS) as a revolutionary new method that is positioned to replace numerous existing diagnostic and microbial typing technologies with a single new target: the microbial draft genome. The ability to cheaply generate large amounts of microbial genome sequence data, combined with emerging policies of food regulatory and public health institutions making their microbial sequences increasingly available and public, has served to open up the field to the general scientific community. This open data access policy shift has resulted in a proliferation of data being deposited into sequence repositories and of novel bioinformatics software designed to analyze these vast datasets. There also has been a more recent drive for improved data sharing to achieve more effective global surveillance, public health and food safety. Such developments have heightened the need for enhanced analytical systems in order to process and interpret this new type of data in a timely fashion. In this review we outline the emergence of genomics, bioinformatics and open data in the context of food safety. We also survey major efforts to translate genomics and bioinformatics technologies out of the research lab and into routine use in modern food safety labs. We conclude by discussing the challenges and opportunities that remain, including those expected to play a major role in the future of food safety science.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.