Fig. 1

Fig. 2

Fig. 3

Fig. 4

Fig. 5

Fig. 6

Primers used in this study
| Primer | Sequence (5′-3′) | PCR product (bp) | Target organism | Reference |
|---|---|---|---|---|
| MD16S1-F | ATCTAATGGCTTAACCATTAAAC | 857 | Campylobacter spp. | (10) |
| MD16S2-R | GGACGGTAACTAGTTTAGTATT | 589 | C. jejuni | |
| MDmapA1-F | CTATTTTATTTTTGAGTGCTTGTG | |||
| MDmapA2-R | GCTTTATTTGCCATTTGTTTTATTA | |||
| L15f | GCTCAGGAYGAACGCYGG | 750 | lactic acid bacteria | (9) |
| L687r | CACCGCTACACATGRADTTC | |||
| lsF | GAGCTTGCTCCTCATTGATAA | |||
| lsR | TTGGATACCGTCACTACCTG | 434 | Lactobacillus sakei | (17) |
Campylobacter spp_ detection results from pooled faecal samples
| Group | Days post infection | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| pre | 1 | 3 | 5 | 7 | 9 | 11 | 13 | 15 | 17 | 19 | 21 | 23 | 25 | 27 | 29 | 31 | |
| 1 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| 2 | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - |
| 3 | - | - | - | + | - | - | + | + | - | - | - | + | + | + | - | + | + |
| 4 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Lactobacillus sakei L14 PCR detection results from pooled faecal samples
| Group | Days post infection | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| pre | 1 | 3 | 5 | 7 | 9 | 11 | 13 | 15 | 17 | 19 | 21 | 23 | 25 | 27 | 29 | 31 | |
| 1 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| 2 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| 3 | - | + | - | - | - | - | - | + | - | - | + | + | - | - | - | - | - |
| 4 | - | + | - | - | - | - | - | - | - | - | + | + | + | + | - | - | - |
Lactic acid bacteria PCR detection results from pooled faecal samples
| Group | Days post infection | ||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| pre | 1 | 3 | 5 | 7 | 9 | 11 | 13 | 15 | 17 | 19 | 21 | 23 | 25 | 27 | 29 | 31 | |
| 1 | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + |
| 2 | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + |
| 3 | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + |
| 4 | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + |
Campylobacter spp_ PCR detection results from individual gut samples at 33 days post infection
| Group | Sample | |||
|---|---|---|---|---|
| A | B | C | D | |
| 1 | - | - | - | n/a |
| 2 | - | - | - | n/a |
| 3 | + | + | + | + |
| 4 | - | - | - | - |
Optimised PCR conditions used in this study adapted from Subejano & Penuliar (26)
| PCR step | MD16S1-F / MD16S2-R | MDmapA1-F / MDmapA2-R | L15f / L687r | lsF / lsR | Number of cycles |
|---|---|---|---|---|---|
| Initial denaturation | 95°C, 2 min | 95°C, 2 min | 95°C, 2 min | 95°C, 2 min | 1 |
| Denaturation | 95°C, 1 min | 95°C, 1 min | 95°C, 1 min | 95°C, 1 min | |
| Annealing | 49°C, 1 min | 53°C, 1 min | 60°C, 1 min | 60°C, 1 min | 35 |
| Extension | 72°C, 1 min | 72°C, 1 min | 72°C, 1 min | 72°C, 1 min | |
| Final extension | 72°C, 5 min | 72°C, 5 min | 72°C, 5 min | 72°C, 5 min | 1 |