genomic epidemiology Flashcards
(8 cards)
1
Q
What steps were taken in the S. typhimurium outbreak?
A
- PFGE showed strain relation
- case control study showed peanut butter and chicken had high odds ratios
- food items for culture
2
Q
What is the purpose of genomic epi in ID?
A
- detect outbreaks
- study modes of transmission
- study microbial evolution and strain emergence
- extensive pathogen characteristics
3
Q
What is PulseNet?
A
a network established by CDC to enhance outbreak detections in the US and globally
4
Q
PulseNet uses _________ methods
A
molecular subtyping
reproducible, stable, discriminatory power, cost, speed, easy
5
Q
What are the origins of bacterial genomic surveillance?
A
Routine PFGE of Ecoli O157:H7 in 1995 by Minn DoH detected otherwise undetected outbreaks
6
Q
What are limitations of PFGE?
A
slow, subjective, little info, variability
7
Q
WGS detects ____
A
SNPs
8
Q
How can we use SNPs to detect outbreaks
A
related organisms have fewer SNPs (cutoff is 10 or 15)
WGS connects the dots but must be used in conjunction with epi surveillance principles and intervention practices
