Skip to main content
U.S. flag

An official website of the United States government

Official websites use .gov
A .gov website belongs to an official government organization in the United States.

Secure .gov websites use HTTPS
A lock ( ) or https:// means you’ve safely connected to the .gov website. Share sensitive information only on official, secure websites.

Skip to content

Try the next-generation Data Catalog at catalog-beta.data.gov and help shape it with your feedback.

  • Feedback

    • Data from: Combination of serial plating and long-read sequencing to detect and quantify live Shiga-toxin producing <i>Escherichia coli</i>

    Metadata Updated: March 13, 2026

    Consumption of food contaminated with Shiga toxin-producing Escherichia coli (STEC) causes millions of illnesses in the United States annually. Long-read sequencing could be used to reduce the time needed to test food for STEC, but sequencing is not quantitative and cannot differentiate between live and dead bacteria. Therefore, this study investigated combining serial plating with long-read sequencing to quantify only live STEC in a sample. Ground beef was inoculated with STEC and stomached. The liquid was filtered to remove eukaryotic cells and then centrifuged to pellet the bacteria. Serial dilutions of the pellet were plated on selective agar and then single colonies were selected for sequencing. During initial experiments where sample processing was conducted at room temperature, a 1 log increase in STEC concentration from the initial inoculated amount was observed. Subsequent experiments kept samples and reagents cold, and the amount of STEC recovered did not significantly differ from the amount inoculated. The DNA extracted from a single colony provided enough data to identify all virulence genes of interest multiple times. The amount of STEC in a sample could be quantified down to 1 cfu g-1. The ability of this method to quantify STEC in samples would improve risk assessment and guide mitigation in industry.

    Access & Use Information

    Public: This dataset is intended for public access and use. License: Creative Commons CCZero

    Downloads & Resources

    Dates

    Metadata Created Date March 13, 2026
    Metadata Updated Date March 13, 2026

    Metadata Source

    Harvested from USDA JSON

    Other Data Resources

    Additional Metadata

    Resource Type Dataset
    Metadata Created Date March 13, 2026
    Metadata Updated Date March 13, 2026
    Publisher Agricultural Research Service
    Maintainer
    Identifier 10.15482/USDA.ADC/31258642.v1
    Data Last Modified 2026-02-17
    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 8c88843e-4563-46f0-b0be-3e91dc95c363
    Harvest Source Id d3fafa34-0cb9-48f1-ab1d-5b5fdc783806
    Harvest Source Title USDA JSON
    License https://creativecommons.org/publicdomain/zero/1.0/
    Program Code 005:040
    Source Datajson Identifier True
    Source Hash 090a91c8ac0b2dd5e8d36bcf05a45b479d78966d1b0c8d60b6feb8b340ddc668
    Source Schema Version 1.1
    Temporal 2024-01-16/2025-01-07

    Didn't find what you're looking for? Suggest a dataset here.