Table 1.
Oligonucleotide primers used for sequencing of the C. coli biomarker genes included in the proteotyping scheme.
| ORF No. (RM4661) | Gene product | Forward primer (5′ → 3′) | Reverse primer (5′ → 3′) | Amplicon length [bp] |
|---|---|---|---|---|
| YSS_RS00895 | RpmJ/L36 | AGCTGCTGCTTCATCTTCACT | AGCCTTGATAAAGGGCGTATC | 490 |
| YSS_RS04330 | RpmH/L34 | AAATGCTCGGGCAAATTGATTA | GCCATCGCAATACCACTTTT | 512 |
| YSS_RS01420 | RpmF/L32 | TGCACCACTATGTCCTGCTG | TGCCACAATGCAAGGTTTTGT | 728 |
| YSS_RS02145 | RpmG/L33 | AGCTGATGGCGTTGAAATGG | ACCCCCAACCATCGGATTTG | 430 |
| YSS_RS09385 | RpsN/S14 | ACACGACGACCTGGTTTAGA | TCGGTCTTGATGAGCAGTTGA | 611 |
| YSS_RS09410 | RpmC/L29 | GGTCTGCATTCAACCGCTAC | GCCAAATTGAAGCAGCTCGT | 668 |
| YSS_RS02020 | RpmB/L28 | CGTCAAGTTCATTATGGCGCT | TGGAACAAAATGCCCGTCCA | 742 |
| YSS_RS08275 | RpmI/L35 | GCAAGCAGCATTGATACGCA | GCTTGGCTATTTTGCAAAGGATT | 715 |
| YSS_RS08510 | RpmE/L31 | GCAAGGTTTTTCCTGATGCTGT | TGGCATACCCGCATCACTC | 756 |
| YSS_RS09395 | RplX/L24 | TCGGAACTCGTATCTTTGGGC | CAGGAAAACCTTCACGCACT | 578 |
| YSS_RS02035 | DUF465 | GCTGCTGGGTAAGATTTTGGT | TCGTGTAACCCTAGAAGATGGC | 584 |
| YSS_RS00440 | RpmA/L27 | AGTTAGCGTTGGCGATGAGTT | AACGAAGATGATATCCCCGCC | 783 |
| YSS_RS00790 | RpsT/S20 | GCTCTTCTTCGAGTTTGGGTT | GGTGGATTGGGTGTTATGCT | 765 |
| YSS_RS04540 | RpsO/S15 | ATATCGGATACAACCGCGCA | GCATACTCGCTAGCTTTGGT | 636 |
| YSS_RS09430 | RpsS/S19 | AGCACCAGCATCTACACGAC | ATGGCAAGTATCGGCGAAGT | 782 |