Type of sample | Total | Frequency | Pool | Analysis | Reason |
---|---|---|---|---|---|
 |  | F0; before inoculation | 3 calves per pool: 1: oral 2: no challenge 3a&b: T-tracheal 4a&b: Nasal |  | Faecal MAP shedding before infection |
Faeces | 13 per calf | Week 1 F1-3 pi Week 2 F4-6 pi Week 3 F7-9 pi; Each of 3 days following weekly inoculation. | 3 samples of 2 calves per pool: 1a&b: oral 2a&b: no challenge 3a, b&c: T-tracheal 4a, b&c: Nasal | Liquid MAP culture with confirmation IS900 PCR | Passive faecal MAP shedding after inoculation |
 |  | Week 6 F10 pi | 3 calves per pool: 1: oral 2: no challenge 3a&b: T-tracheal 4a&b: Nasal |  | Faecal MAP Shedding |
 |  | Week 9 F11 pi | Individually |  |  |
 |  | Week 12 F12 pi | Individually |  | Faecal MAP Shedding |
Dust | 18; at each stall | Week 11 pi | Individually | Liquid MAP culture with confirmation IS900 PCR | Environmental contamination with MAP |
Serum | 2 per calf | Week 0 pi Week 12 pi | Individually | Commercial JD-ELISA | B-cell activation& seroconversion |
Whole blood | 1 per calf | Week 12 pi | Individually | Bovigam® interferon gamma essay | T-cell sensitisation |
Tissue | 18 (19*) per calf | W 12 pi | Individually | Liquid MAP culture with confirmation IS900 PCR | Tissue colonisation with MAP |