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PHL NGS Capacity in the United States (2013-2018)
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Classroom Contents
Molecular Epidemiology - Critical Applications in Public Health and Clinical Laboratories
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- 1 Intro
- 2 A brief history of molecular typing techniques.
- 3 Characteristics of molecular typing methods.
- 4 Pulsed-Field Gel Electrophoresis (PFGE)
- 5 PHL NGS Capacity in the United States (2013-2018)
- 6 Foodborne illness: From Patient to Public Health Surveillance
- 7 Transition to Use of Whole Genome Sequencing in PulseNet
- 8 Using WGS to Link Clinical Cases with Outbreak Source
- 9 Potential Importance of REPs in Reducing Disease Incidence . Most illnesses reported through PulseNet are not linked to a source - 10% of isolates are part of an outbreak
- 10 Investigating REP Strains • Repeated/ongoing identification of the same strain suggests that there is an upstream contributor or reservoir - Traditional outbreak control measures, like product recall…
- 11 CgMLST Minimum Spanning Tree of REPEXHO2 Strain by Outbreak (n=398 Human and Environmental Isolates)
- 12 Candida auris: Urgent AR Threat
- 13 Distinct C. auris strains (clades)
- 14 Separate introductions in NY and NJ, 2017
- 15 Transmission of pan-resistant and echinocandin-resistant C. auris, Texas and District of Columbia, 2021
- 16 Texas and DC clusters
- 17 Genomic data supports simultaneous and independent emergence of TX and DC clusters
- 18 Texas ech-r and pan-r strains cluster separately from ech-susceptible strains
- 19 Pathogen Genomics Centers of Excellence
- 20 Molecular Epidemiology Fellowship (MEF)
