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Zoekresultaten - 10 results
Benchmarking bacterial taxonomic classification using nanopore metagenomics data of several mock communities
sequencing. While second-generation Illumina sequencing still dominates, third-generation nanopore sequencing promises improved classification through longer reads. However, extensive benchmarking studies on ...
Towards facilitated interpretation of shotgun metagenomics long-read sequencing data analyzed with KMA for the detection of bacterial pathogens and their antimicrobial resistance genes
Publication Type: Peer reviewed scientific article Authors: Mathieu Gand; Navickaite, Indre; Bartsch, Lee-Julia; Grützke, Josephine; Overballe-Petersen, Søren; Rasmussen, Astrid; Otani, Saria; Michelacci, Valeria; Matamoros, Bosco Rodríguez; González-Zorn ...
Development of strain-level shotgun metagenomics approaches to detect and characterize microbiological contaminants in the context of food safety
resolution in samples with more than one strain of the same species, with both long and short reads sequencing technologies. Moreover, it offered proof of concepts of the feasibility of such a method, as asked ...
Comparison of 6 DNA extraction methods for isolation of high yield of high molecular weight DNA suitable for shotgun metagenomics Nanopore sequencing to detect bacteriaAbstractBackgroundResultsConclusion
Keywords: DNA extraction HMW DNA Long-read Metagenomics Method evaluation nanopore Abstract: Background: Oxford Nanopore Technologies (ONT) offers an accessible platform for long-read sequencing, which ...
Report on an initial assessment of long-read sequencing for metagenome (community and AMR) analysis (defined community, spiked and real simple and complex matrices) and comparison to current short-read standard
URL: https://doi.org/10.5281/zenodo.7429361 Keywords: Antimicrobial resistance Bacterial community Long read metagenomics Metagenome Health Topics: Health and disease monitoring Food consumption and ...
Optimised long-read sequence bioinformatics tool for the analysis of the resistome and microbial communities
https://doi.org/10.5281/zenodo.7433258 Keywords: Antimicrobial resistance bioinformatics Long read metagenomic sequencing Microbial community Resistome Health Topics: Antimicrobial resistance (AMR) Food consumption and food safety ...
Metagenomic Characterization of Multiple Genetically Modified Bacillus Contaminations in Commercial Microbial Fermentation Products
high-throughput sequencing to confirm and extend the results of classical analysis methods for the genomic characterization of unauthorized GMM. By combining short- and long-read metagenomic sequencing, two ...
Shotgun metagenomics as a ONE Health tool for better protecting human health
a faster time frame. EFSA called for such proof-of-concepts in a recent opinion about the use of metagenomics for food safety. Additionally, we showed that the use of long-read sequencing can help to ...
Towards Real-Time and Affordable Strain-Level Metagenomics-Based Foodborne Outbreak Investigations Using Oxford Nanopore Sequencing Technologies
Technologies, and we compared this to Illumina short-read-based metagenomics. After 12 h of MinION sequencing, strain-level characterization could be achieved, linking the food containing a pathogen to the ...
A shotgun metagenomics approach to detect and characterize unauthorized genetically modified microorganisms in microbial fermentation products
Nancy Roosens; Sigrid C.J. De Keersmaecker Source: Food Chemistry: Molecular Sciences, Volume 2 (2021) Keywords: AMR genetically modified microorganism identification long and short read sequencing ...