Abstract
AbstractEfficient and accurate identification of microorganisms throughout the food chain can potentially allow the identification of sources of contamination and the timely implementation of control measures. High throughput DNA sequencing represents a potential means through which microbial monitoring can be enhanced. While Illumina sequencing platforms are most typically used, newer portable platforms, such as the Oxford Nanopore Technologies (ONT) MinION, offer the potential for rapid analysis of food chain microbiomes. Initial assessment of the ability of rapid MinION-based sequencing to identify microbes within a simple mock metagenomic mixture is performed. Subsequently, we compare the performance of both ONT and Illumina sequencing for environmental monitoring of an active food processing facility. Overall, ONT MinION sequencing provides accurate classification to species level, comparable to Illumina-derived outputs. However, while the MinION-based approach provides a means of easy library preparations and portability, the high concentrations of DNA needed is a limiting factor.
Funder
Department of Agriculture, Food and the Marine
Science Foundation Ireland
EC | Horizon 2020 Framework Programme
Publisher
Springer Science and Business Media LLC
Subject
Public Health, Environmental and Occupational Health,Food Science
Reference57 articles.
1. Gleeson, D., O’Connell, A. & Jordan, K. Review of potential sources and control of thermoduric bacteria in bulk-tank milk. Ir. J. Agric. Food Res. 52, 217–227 (2013).
2. Doyle, C. J., Gleeson, D., O’Toole, P. W. & Cotter, P. D. High-throughput sequencing highlights the significant influence of seasonal housing and teat preparation on the raw milk microbiota. Appl. Environ. Microbiol. 83, 02694–16 (2016).
3. Faille, C. et al. Sporulation of Bacillus spp. within biofilms: a potential source of contamination in food processing environments. Food Microbiol. 40, 64–74 (2014).
4. Wang, B. et al. Bacterial composition of biofilms formed on dairy-processing equipment. Prep. Biochem. Biotechnol. 49, 477–484 (2019).
5. Fysun, O., Kern, H., Wilke, B. & Langowski, H.-C. Evaluation of factors influencing dairy biofilm formation in filling hoses of food-processing equipment. Food Bioprod. Process. 113, 39–48 (2019).
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