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    • Data from: Use of long-read sequencing simulators to assess real-world applications for food safety

    Metadata Updated: April 21, 2025

    Shiga toxin-producing Escherichia coli (STEC) and Listeria monocytogenes 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 L. monocytogenes. 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, L. monocytogenes, and a 1:1 combination of STEC and Bos taurus genomes using NanoSim-H. This dataset includes all of the simulated reads generated by the project in fasta format. This dataset can be analyzed bioinformatically or used to test bioinformatic pipelines.

    Access & Use Information

    Public: This dataset is intended for public access and use. License: us-pd

    Downloads & Resources

    Dates

    Metadata Created Date March 30, 2024
    Metadata Updated Date April 21, 2025

    Metadata Source

    Harvested from USDA JSON

    Other Data Resources

    Additional Metadata

    Resource Type Dataset
    Metadata Created Date March 30, 2024
    Metadata Updated Date April 21, 2025
    Publisher Agricultural Research Service
    Maintainer
    Identifier 10.15482/USDA.ADC/1529447
    Data Last Modified 2024-02-28
    Public Access Level public
    Bureau Code 005:18
    Metadata Context https://project-open-data.cio.gov/v1.1/schema/catalog.jsonld
    Schema Version https://project-open-data.cio.gov/v1.1/schema
    Catalog Describedby https://project-open-data.cio.gov/v1.1/schema/catalog.json
    Harvest Object Id 8fdf5d05-da73-4245-b4e3-a58f69472ceb
    Harvest Source Id d3fafa34-0cb9-48f1-ab1d-5b5fdc783806
    Harvest Source Title USDA JSON
    License https://www.usa.gov/publicdomain/label/1.0/
    Old Spatial {"type": "Point", "coordinates": -795.18665313721, 40.077810523208}
    Program Code 005:040
    Source Datajson Identifier True
    Source Hash 54214073146676162134b5d73c56597e36144c9f6c9fb68e7ce90cea3b57a1d5
    Source Schema Version 1.1
    Spatial {"type": "Point", "coordinates": -795.18665313721, 40.077810523208}
    Temporal 2021-11-01/2022-06-30

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