Table 6 Primers used in qPCR analysis to determine the microbiota in fecal swabs taken 5 days post-infection with E. coli K88. The efficiency of the qPCR was ≥95% for all primers [22]
From: Molecules produced by probiotics prevent enteric colibacillosis in pigs
Phylum | Class/Family/Genus | Species /Group | Primer sequence | Amplicon size (bp) |
|---|---|---|---|---|
Universal | All | All | F - 5′-ACTCCTACGGGAGGCAGCAGT-3′ R - 5′-GTATTACCGCGGCTGCTGGCAC-3’ | 175–199 |
Firmicutes | All | All | F - 5’-TGAAACTCAAAGGAATTGACG-3′ R - 5′-ACCATGCACCACCTGTC-3’ | 157 |
Firmicutes | Clostridia | Cluster XIVa | F - 5’-AAATGACGGTACCTGACTAA-3′ R - 5′-CTTTGAGTTTCATTCTTGCGAA-3’ | 438 |
Firmicutes | Lactobacillus | spp. | F - 5’-AGCAGTAGGGAATCTTCCA-3′ R - 5′-CACCGCTACACATGGAG-3’ | 341 |
Bacteroidetes | Bacteroides/Prevotella | spp. | F - 5’-GAGAGGAAGGTCCCCCAC-3′ R - 5′-CGCTACTTGGCTGGTTCAG-3’ | 106 |
Actinobacteria | Bifidobacterium | spp. | F - 5’-CGCGTCYGGTGTGAAAG-3′ R - 5′-CCCCACATCCAGCATCCA-3’ | 244 |
Proteobacteria | Enterobacter-iaceae | group | F - 5’-CATTGACGTTACCCGCAGAAGAAGC-3′ R - 5′-CTCTACGAGACTCAAGCTTGC-3’ | 195 |