دورية أكاديمية
أعرض في EDS

A metagenomics-based workflow for the detection and genomic characterization of GBS in raw freshwater fish.

التفاصيل البيبلوغرافية
العنوان: A metagenomics-based workflow for the detection and genomic characterization of GBS in raw freshwater fish.
المؤلفون: Sim KH; National Centre for Food Science, Singapore Food Agency, Singapore, Singapore., Ho J; National Centre for Food Science, Singapore Food Agency, Singapore, Singapore., Lim JQ; National Centre for Food Science, Singapore Food Agency, Singapore, Singapore., Chan SH; National Centre for Food Science, Singapore Food Agency, Singapore, Singapore.; Department of Food Science & Technology, Faculty of Science, National University of Singapore, Singapore, Singapore., Li A; National Centre for Food Science, Singapore Food Agency, Singapore, Singapore., Chng KR; National Centre for Food Science, Singapore Food Agency, Singapore, Singapore.; Department of Biological Sciences, Faculty of Science, National University of Singapore, Singapore, Singapore.
المصدر: Microbiology spectrum [Microbiol Spectr] 2024 Jun 04; Vol. 12 (6), pp. e0327623. Date of Electronic Publication: 2024 May 07.
نوع المنشور: Journal Article
اللغة: English
بيانات الدورية: Publisher: ASM Press Country of Publication: United States NLM ID: 101634614 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2165-0497 (Electronic) Linking ISSN: 21650497 NLM ISO Abbreviation: Microbiol Spectr Subsets: MEDLINE
أسماء مطبوعة: Original Publication: Washington, DC : ASM Press, 2013-
مواضيع طبية MeSH: Metagenomics*/methods , Workflow* , Fishes*/microbiology , Streptococcus agalactiae*/genetics , Streptococcus agalactiae*/isolation & purification, Animals ; Fresh Water/microbiology ; Genome, Bacterial/genetics ; Singapore ; Streptococcal Infections/veterinary ; Streptococcal Infections/diagnosis ; Streptococcal Infections/microbiology ; Food Microbiology ; Foodborne Diseases/microbiology ; Humans
مستخلص: The unexpected foodborne outbreak in Singapore in 2015 has accentuated Group B Streptococcus (GBS, Streptococcus agalactiae ) sequence type 283 as an emerging foodborne pathogen transmitted via the consumption of contaminated raw freshwater fish. Isolation-based workflows utilizing conventional microbiological and whole-genome sequencing methods are commonly used to support biosurveillance efforts critical for the control management of this emerging foodborne pathogen. However, these isolation-based workflows tend to have relatively long turnaround times that hamper a timely response for implementing risk mitigation. To address this gap, we have developed a metagenomics-based workflow for the simultaneous detection and genomic characterization of GBS in raw freshwater fish. Notably, our validation results showed that this metagenomics-based workflow could achieve comparable accuracy and potentially better detection limits while halving the turnaround time (from 2 weeks to 5 days) relative to an isolation-based workflow. The metagenomics-based workflow was also successfully adapted for use on a portable long-read nanopore sequencer, demonstrating its potential applicability for real-time point-of-need testing. Using GBS in freshwater fish as an example, this work represents a proof-of-concept study that supports the feasibility and validity of metagenomics as a rapid and accurate test methodology for the detection and genomic characterization of foodborne pathogens in complex food matrices.
Importance: The need for a rapid and accurate food microbiological testing method is apparent for a timely and effective foodborne outbreak response. This is particularly relevant for emerging foodborne pathogens such as Group B Streptococcus (GBS) whose associated food safety risk might be undercharacterized. By using GBS in raw freshwater fish as a case example, this study describes the development of a metagenomics-based workflow for rapid food microbiological safety testing and surveillance. This study can inform as a working model for various foodborne pathogens in other complex food matrices, paving the way for future methodological development of metagenomics for food microbiological safety testing.
Competing Interests: The authors declare no conflict of interest.
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فهرسة مساهمة: Keywords: biosurveillance; food safety; foodborne pathogen; group B Streptococcus; metagenomics
تواريخ الأحداث: Date Created: 20240507 Date Completed: 20240605 Latest Revision: 20240807
رمز التحديث: 20240807
مُعرف محوري في PubMed: PMC11237576
DOI: 10.1128/spectrum.03276-23
PMID: 38712931
قاعدة البيانات: MEDLINE
الوصف
تدمد:2165-0497
DOI:10.1128/spectrum.03276-23