TABLE 2.
Primers used in this work
| Primer use | Primer name | Sequence (5′–3′) | Reference |
|---|---|---|---|
| ICE labeling | This study | ||
| F1-4 CDS7 F | GAGATTGAGCATATCCTTCC | ||
| F1-4 CDS8 R_Bis | GGTGACTAGTTATCTACACGCGAGATTCGTGGACTAACTT | ||
| F1-4 CDS9 F_Bis | CCATATCCTTCTTTTTCTGCTCACTATCTTGTTCGTTTTGT | ||
| F1-4 CDS9 R | GGAGAGTTTAGCTGGGAGG | ||
| ICE F4-2 fragment I_F | GGAAATATCCTGTTGTCATC | ||
| ICE F4-2 fragtI_R-catbis | GGTGACTAGTTATCTACACGCCTATAAAGTTGTTAAGTTCACT | ||
| ICE F4-2 fragtII_F-catbis | CCATATCCTTCTTTTTCTGGCGTGTAATTGAAGAGTGA | ||
| ICE F4-2 fragment II_R | GTCTAAACTGAGCCAAGAAG | ||
| Cat_F | GCCTCCTAAATTCACTTTAG | ||
| Cat_R | GTAAAAAGTACAGTCGGCAT | ||
| Detection of ICE integrated and excised forms | |||
| attB amplification | 23 | ||
| attBfdaSsal | GCCCAACCAAATAACACTAAA | ||
| attB ST3 Rev | CTCTTCGACCCACGTAAATTC | ||
| attI amplification | 23 | ||
| intST3 For | AGGGCTTTCTGACGAATTAG | ||
| attI ST3 Rev | CGGTGTAATGGGAAGTATGG | ||
| attL amplification | |||
| attL Rv CDS gwlG | CGGTGTAATGGGAAGTATGG | This study | |
| attBfdaSsal | GCCCAACCAAATAACACTAAA | 23 | |
| attR amplification | |||
| intST3 for | AGGGCTTTCTGACGAATTAG | 23 | |
| intICESt3-fdaRev | ACCAGGTTTCGATGCTATTACAG | 35 | |
| Integrase gene | 23 | ||
| intST3 for | AGGGCTTTCTGACGAATTAG | ||
| intST3 Rev | GAGTTCTAATAACTGAGGCTA | ||
| Semiquantitative PCR | |||
| attI amplification | This study | ||
| intICEF1-4 For | AGGTCTTTCTGACGAATTAG | ||
| attIICEF1-4 Rev | CGGCGTAATGGGAAGTATGG | ||
| attB amplification | 23 | ||
| attBfdaSsal | GCCCAACCAAATAACACTAAA | ||
| attB ST3 Rev | CTCTTCGACCCACGTAAATTC | ||
| fda amplification | |||
| Fda1 | TTCAAGAATTTACGTGGG | This study | |
| Fda2 | AGATGCTAAAGCTATGGTTG | 56 | |
| Donor/recipient discrimination | |||
| ITS16S/23S | 24 | ||
| 16SITS | TTGTACACACCGCCCGTCA | ||
| 23SITS | GGTACCTTAGATGTTTCAGTTC | ||
| ddlA gene | 60 | ||
| ddlA up | TCAAGTGTGGCTATGGA | ||
| ddlA dn | GTAGATGGCTCCATCCTC | ||
| E. faecalis fda-specific amplification | 24 | ||
| Efa fba1b | ATGTGTTCTTCTGCATCTTT | ||
| Efa fba2 | CCCATTGATTACGATTTTT | ||
| RAPD | 56 | ||
| XD9 | GAAGTCGTCC | ||
| pMG36e | |||
| pMG36e Fwd | GCCTCCTCATCCTCTTCAT | 24 | |
| pMG36e_R | ACAGAACCGTTTCTACTCAATGAAC | This study |