FSIS Posts Q4 FY2025 Residue Report, Updates WGS Sequencing Method

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Constituent Update Friday, April 10 2026

Constituent Update - April 10, 2026

FSIS Posts National Residue Sampling Report and Data

FSIS’ National Residue Program Quarterly Report (July to September 2025) and associated datasets are now available on the FSIS website. The report and datasets cover residue sampling data for domestic surveillance, inspector-generated, and import sampling programs for the fourth quarter of fiscal year 2025. The quarterly report summarizes the chemical residue results for the U.S. National Residue Program for meat, poultry and egg products, helping to ensure a safe food supply.

Please visit the FSIS website for more details on the annual sampling plans and reports.

FSIS Updates Whole Genome Sequencing Laboratory Method

FSIS is announcing updates to its whole genome sequencing (WGS) laboratory method to incorporate the Illumina® MiSeq i100 sequencing platform. The MiSeq i100 represents the next generation of MiSeq sequencing instrumentation featuring integrated sequencing chemistry and substantially reduced runtimes. This modernization enhances the FSIS laboratory system's ability to generate consistent, high-quality genomic data with increased laboratory sample throughput.

The updated Microbiology Laboratory Guidebook (MLG) chapter 42, “ Whole Genome Sequencing of Bacterial Isolates, ” now includes protocols for using both the Illumina® MiSeq and MiSeq i100 platforms. FSIS will begin integrating the MiSeq i100 platform starting in May 2026, through the remainder of the fiscal year as existing laboratory supplies are exhausted and additional i100 units come online across FSIS laboratories. The current MiSeq instrumentation remains fully valid and equivalent for WGS analyses and will continue to be used where appropriate.

WGS determines the full DNA sequence of an organism in a single laboratory protocol, and FSIS performs WGS on every bacterial isolate obtained from regulated food product and environmental samples. This extensive, publicly available data supports foodborne pathogen monitoring, food safety research, and other regulatory applications. The inclusion of a specific commercial product in the MLG should not be considered an endorsement by FSIS.

Available for Public Comment

FSIS seeks public comments on proposed rules and notices, which are viewable on the FSIS Federal Register & Rulemaking webpage. FSIS is currently seeking comments on the following:

• Until April 13: Notice of Request To Renew an Approved Information Collection: Sanitation SOPs and Pathogen Reduction/HACCP
• Until April 20: Maximum Line Speed Under the New Swine Slaughter Inspection System (NSIS)
• Until April 20: Maximum Line Speed Rates for Young Chicken and Turkey Establishments Operating Under the New Poultry Inspection System (NPIS)
• Until May 11: Notice of Request To Renew an Approved Information Collection: Nutrition Labeling of Major Cuts of Single-Ingredient Raw Meat or Poultry Products and Ground or Chopped Meat and Poultry Products
• Until May 18: Notice of Request To Renew an Approved Information Collection: Public Health Information System: Public Health Information System (PHIS)
• Until May 19: Notice of Request To Renew an Approved Information Collection: Procedures for the Notification of New Technology and Requests for Waivers
• Until May 22: Notice of Request to Renew an Approved Information Collection: Voluntary Destruction of Imported Meat, Poultry, and Egg Products
• Until May 26: Notice of Request To Renew an Approved Information Collection: Laboratory Assessment Requests

Export Requirements Update

The Library of Export Requirements has been updated for products for the following:

• New Zealand
• Korea Complete information can be found at the FSIS Import & Export Library.

Last Updated: Apr 10, 2026