{"@type": "dcat:Dataset", "accessLevel": "public", "bureauCode": ["005:18"], "contactPoint": {"fn": "Counihan, Katrina", "hasEmail": "mailto:katrina.counihan@usda.gov"}, "description": "<p>Shiga toxin-producing <em>Escherichia coli</em> (STEC) and <em>Listeria monocytogenes</em> are responsible for severe foodborne illnesses in the United States. Current identification methods require at least four days to identify STEC and six days for <em>L. monocytogenes</em>. Adoption of long-read, whole genome sequencing for testing could significantly reduce the time needed for identification, but method development costs are high. Therefore, the goal of this project was to use NanoSim-H software to simulate Oxford Nanopore sequencing reads to assess the feasibility of sequencing-based foodborne pathogen detection and guide experimental design. Sequencing reads were simulated for STEC, <em>L. monocytogenes</em>, and a 1:1 combination of STEC and <em>Bos taurus</em> genomes using NanoSim-H. This dataset includes all of the simulated reads generated by the project in fasta format. 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"https://ndownloader.figshare.com/files/43773243", "format": "fasta", "mediaType": "text/plain", "title": "75000 Reads.fasta"}, {"@type": "dcat:Distribution", "downloadURL": "https://ndownloader.figshare.com/files/43773261", "format": "fasta", "mediaType": "text/plain", "title": "100000 simulated.fasta"}, {"@type": "dcat:Distribution", "downloadURL": "https://ndownloader.figshare.com/files/43773276", "format": "fasta", "mediaType": "text/plain", "title": "250000 simulated.fasta"}, {"@type": "dcat:Distribution", "downloadURL": "https://ndownloader.figshare.com/files/43773294", "format": "fasta", "mediaType": "text/plain", "title": "500000 simulated.fasta"}, {"@type": "dcat:Distribution", "downloadURL": "https://ndownloader.figshare.com/files/43773315", "format": "fasta", "mediaType": "application/zip", "title": "750000 simulated.fasta"}, {"@type": "dcat:Distribution", "downloadURL": "https://ndownloader.figshare.com/files/44730022", "format": "fasta", "mediaType": "application/zip", "title": "Lmono_750000reads_simulated.fasta"}, {"@type": "dcat:Distribution", "downloadURL": "https://ndownloader.figshare.com/files/44730025", "format": "fasta", "mediaType": "application/zip", "title": "O157H7_750000read_simulated.fasta"}, {"@type": "dcat:Distribution", "downloadURL": "https://ndownloader.figshare.com/files/44730058", "format": "fasta", "mediaType": "application/zip", "title": "O157H7_1000000read_simulated.fasta"}, {"@type": "dcat:Distribution", "downloadURL": "https://ndownloader.figshare.com/files/44730061", "format": "fasta", "mediaType": "application/zip", "title": "Lmono_1000000reads_simulated.fasta"}, {"@type": "dcat:Distribution", "downloadURL": "https://ndownloader.figshare.com/files/44730067", "format": "fasta", "mediaType": "application/zip", "title": "1000000 simulated.fasta"}], "identifier": "10.15482/USDA.ADC/1529447", "keyword": ["ARS", "Escherichia coli O157:H7", "Listeria monocytogenes", "MinION", "NP108", "data.gov", "long-read sequencing", "sequencing simulation"], "license": "https://www.usa.gov/publicdomain/label/1.0/", "modified": "2025-11-21", "programCode": ["005:040"], "publisher": {"@type": "org:Organization", "name": "Agricultural Research Service"}, "spatial": "{\"type\": \"Point\", \"coordinates\": [-795.18665313721, 40.077810523208]}", "temporal": "2021-11-01/2022-06-30", "title": "Data from: Use of long-read sequencing simulators to assess real-world applications for food safety"}