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Success Stories

Some examples of how scientists are using NCBI Pathogen Detection resources to promote public health and further their research goals.

Outbreak analysis

2023

  • Researchers at Cornell University used Pathogen Detection to identify a ciprofloxacin-resistant outbreak among wildlife patients at a veterinary hospital.
  • Scientists in Australia describe using Pathogen Detection for investigation of a Vancomycin Resistance Enterococcus faecium ST78 outbreak at a hospital.
  • Scientists at Virginia Department of Health describe using Pathogen Detection for Gram-negative Carbapenem-Resistant Organisms (CRO) - for example, the use of Pathogen Detection increased the number of isolates potentially related to a Proteus mirabilis outbreak from 3 to 10 - spanning a much longer period than originally investigated.
  • Pathogen Detection was used to rapid identify a food product contaminated with Salmonella before it was large enough to be identified using the standard multistate outbreak detection methods.
  • A much longer paper including perspectives from all international partners about the Listeria monocytogenes enoki mushroom outbreak from 2020 is described using Pathogen Detection. See the earlier 2020 paper
  • Scientists at CDC and FDA describe Foodborne Sample-Initiated Retrospective Outbreak Investigations using Pathogen Detection.
  • Scientists at Harvard Medical School and multiple U.S. public health agencies used Pathogen Detection clustering information to identify cryptic MRSA outbreaks in NICU patients and use AMRFinderPlus to characterize these isolates' AMR and virulence genes.
  • Scientists at the University of Washington and Seattle & King County Public Health use Pathogen Detection Isolates Browser to identify multi-drug resistant Shigella outbreak isolates and use AMRFinderPlus to identify these isolates' AMR genes.

2022

2021

2020

2019

Antimicrobial resistance, point mutations, virulence, and stress response genes and genotypes

2023

2022

2021

2020

  • FDA scientists at the Center for Vetrinary Medicine discover after AMRFinderPlus results in Pathogen Detection showed a high frequency occurrence of MCR-9 in Salmonella that it does NOT correlate with phenotypic resistance.