Primer | Sequence (5′-3′) | PCR product (bp) | Target organism | Reference |
---|---|---|---|---|
MD16S1-F | ATCTAATGGCTTAACCATTAAAC | 857 | ( |
|
MD16S2-R | GGACGGTAACTAGTTTAGTATT | 589 | ||
MDmapA1-F | CTATTTTATTTTTGAGTGCTTGTG | |||
MDmapA2-R | GCTTTATTTGCCATTTGTTTTATTA | |||
L15f | GCTCAGGAYGAACGCYGG | 750 | lactic acid bacteria | ( |
L687r | CACCGCTACACATGRADTTC | |||
lsF | GAGCTTGCTCCTCATTGATAA | |||
lsR | TTGGATACCGTCACTACCTG | 434 | ( |
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 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
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 | - | + | - | - | - | - | - | - | - | - | + | + | + | + | - | - | - |
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 | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + | + |
Group | Sample |
|||
---|---|---|---|---|
A | B | C | D | |
1 | - | - | - | n/a |
2 | - | - | - | n/a |
3 | + | + | + | + |
4 | - | - | - | - |
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 |