PT  - JOURNAL ARTICLE
AU  - Hollie-Ann Hatherell
AU  - Xavier Didelot
AU  - Sue L. Pollock
AU  - Patrick Tang
AU  - Anamaria Crisan
AU  - James C. Johnston
AU  - Caroline Colijn
AU  - Jennifer Gardy
TI  - Declaring a tuberculosis outbreak over with genomic epidemiology
AID  - 10.1101/040527
DP  - 2016 Jan 01
TA  - bioRxiv
PG  - 040527
4099  - http://biorxiv.org/content/early/2016/02/22/040527.short
4100  - http://biorxiv.org/content/early/2016/02/22/040527.full
AB  - We report an updated method for inferring the time at which an infectious disease was transmitted between persons from a time-labelled pathogen genome phylogeny. We applied the method to 48 Mycobacterium tuberculosis genomes as part of a real-time public health outbreak investigation, demonstrating that although active tuberculosis (TB) cases were diagnosed through 2013, no transmission events took place beyond mid-2012. Subsequent cases were the result of progression from latent TB infection to active disease and not recent transmission. This evolutionary genomic approach was used to declare the outbreak over in January 2015.