Table 2.
Primers, probes, and cycling parameters for qPCR assays used in the study
| Target | Primer and probe sequences (5′–3′)a | Cycling parameters | Amplicon size (bp) | Reference |
|---|---|---|---|---|
| Campylobacter spp. 16S rRNA | F: CACGTGCTACAATGGCAAT | 10 min at 95°C; 45 cycles of 15 s at 95°C, 30 s at 58°C, and 30 s at 72°C | 108 | 23 |
| R: GGCTTCATGCTCTCGAGTT | ||||
| P: FAM-CAGAGAACAATCCGAACTGGGACA-BHQ1 | ||||
| SalmonellainvA gene | F: ACAGTGCTCGTTTACGACCTGAAT | 5 min at 94°C; 30 cycles of 30 s at 94°C, 35 s at 59°C, and 120 s at 72°C | 244 | 11 |
| R: AGACGACTGGTACTGATCGATAAT | ||||
| G. lamblia β-giardin gene | F: CATAACGACGCCATCGCGGCTCTCAGGAA | 3 min at 94°C; 40 cycles of 1 min at 94°C, 1 min at 60°C, and 1 min at 72°C | 218 | 25 |
| R: TTTGTGAGCGCTTCTGTCGTGGCAGCGCTAA | ||||
| P: FAM-AGCTCAACGAGAAGGTCGCAGAGGGCTT-TAMRA | ||||
| Cryptosporidium parvum COWP gene | F: CAAATTGATACCGTTTGTCCTTCTG | 10 min at 95°C; 45 cycles of 15 s at 95°C, 1 min at 60°C | 150 | 16 |
| R: GGCATGTCGATTCTAATTCAGCT | ||||
| P: HEX-TGCCATACATTGTTGTCCTGACAAATTGAAT-BHQ1 |
a
F, forward primer; R, reverse primer; P, probe; FAM, 6-carboxyfluorescein, TAMRA, 6-carboxytetramethylrhodamine; HEX, hexachlorofluorescein; BHQ1, black hole quencher 1.