WGS data for routine typing of M. bovis in New Zealand
Marian Price-Carter
Combined dataset
>400 genomes
Central North Island
SB0140
UK Reference
Southland
• What data should we share and when?
AgR548
AgR554
AgR720
Southland
REA 151/164
SB1031
Challenging Questions
REA 115
AgR104
REA 151/161
Central North Island
REA 93
SB0140
SB1417 AN5
AgR9
•
1 colony or 5?
Should we sample a clone or the population?
REA 187/198/244
Otago/Southland
Source of PPD
• To PE/PPE or not to PE/PPE?
How do you filter SNPs?
REA 19
REA 20
REA11,12
AgR716
AgR711
AgR121
SB0130
AgR141
Marlborough
/North Canterbury
REA 62
• How should we name old SNPs ?
facilitating global compatibility
SA1
AgR719
REA 1,6
REA 21
REA 171
• What is the best root for this tree?
Southland
~100 SNPs
• M. bovis WGS database?