TABLE 1.
Linking clone primers and linking clone probes used in this studya
| Linking clone | Forward primer | Reverse primer | Linking clone coordinates (bp) | Probe template |
|---|---|---|---|---|
| pAG-168 | 5′-ATGCAGAATAGCCCCTTTTAA-3′ | 5′-CGTCCAGCCGTTAAAATG-3′ | 2127942-2130265 | TOPO construct |
| pBC-168 | 5′-ATAACGGGGAAGATGCG-3′ | 5′-TGCTCACAAGAGGAGAAAGC-3′ | 642935-645127 | TOPO construct |
| pCZ-168 | 5′-CGCGATCAAATTAGCCAGT-3′ | 5′-GCTTCCAAGGCTCCATTC-3′ | 995682-998304 | TOPO construct |
| pDE-168 | 5′-CACTTCATCGGCACTCAC-3′ | 5′-GAGTAGGAAAGAAAACCGCA-3′ | 2833532-2835697 | TOPO construct |
| pEM-168 | 5′-CATCACGATGATAAGGAGGA-3′ | 5′-CCATAAATATGCCTTGCGTT-3′ | 3096907-3099044 | PCR product |
| pFB-168 | 5′-CCCTTGGCACTTAGATTCC-3′ | 5′-AAGCCAAATGTGCCTCTTT-3′ | 205592-207634 | TOPO construct |
| pGK-168 | 5′-ATCTGAACTGACACCGGA-3′ | 5′-GAAGTAGCCGGTTCACAC-3′ | 2325518-2327701 | TOPO construct |
| pHP-168 | 5′-GATCGCAATTGACCCACT-3′ | 5′-GATTGCAGCAATTGTGCC-3′ | 3437833-3439984 | TOPO construct |
| pIY-168 | 5′-AAGGCATTGGCTGGATTG-3′ | 5′-TTCTTCGAGCTCCTGTGT-3′ | 3735053-3737244 | PCR product |
| pJQ-168 | 5′-AACAAACGGCAACTACGG-3′ | 5′-CAAACGGAAAGAGGACGAC-3′ | 3933539-3935831 | TOPO construct |
| pKS-168 | 5′-GTGATCAGCACTCTCGTTC-3′ | 5′-GCTCATTATCGCGGGATT-3′ | 2488261-2490611 | PCR product |
| pLW-168 | 5′-CCAAACGCAATGGGTTCT-3′ | 5′-CAAAAGAATGCCTGTCCGT-3′ | 1222673-1225333 | PCR product |
| pMH-168 | 5′-TTCGGCTTTGTGGAATGG-3′ | 5′-GGTATGCGTTGGCCTATG-3′ | 3241798-3244090 | TOPO construct |
| pNF-168 | 5′-GTGAGTAAATCGGATCGAGG-3′ | 5′-CGTCTGAAGATAGATGGCTG-3′ | 4181779-4184036 | TOPO construct |
| pOT-168 | 5′-AGATCGGGATCAAGCCAC-3′ | 5′-TGAACGATGACACGGTCTT-3′ | 1375293-1377581 | PCR product |
| pPI-168 | 5′-ACTCATTCTCTCCACTTCCA-3′ | 5′-GGTGATGCCTAAAGTGCC-3′ | 3557964-3560071 | PCR product |
| pQX-168 | 5′-TTCAGCCAGTTCTCGTCT-3′ | 5′-AAGAGCAACAAGCGGAAC-3′ | 4028442-4030953 | TOPO construct |
| pRL-168 | 5′-CGAAAATTGGGAGACGGAG-3′ | 5′-GCTTGTGCTGATTATGGGT-3′ | 1079392-1081702 | PCR product |
| pSD-168 | 5′-TTCATACCCTGCATTGCC-3′ | 5′-TGGCACCTTTCAGTGTTC-3′ | 2523743-2525988 | TOPO construct |
| pTA-168 | 5′-CTGCGAGATCGTTTACGG-3′ | 5′-CAAGATTCAGGAATCGGCA-3′ | 1403319-1405511 | TOPO construct |
| pUR-168 | 5′-TTATGCGACATTGGGAGAG-3′ | 5′-CTGAGGTTAAGGCTGCAA-3′ | 1023117-1025305 | PCR product |
| pVJ-168 | 5′-AAGGCGATGAATTAGGCA-3′ | 5′-CGTAAATGCAAAAGGAGACA-3′ | 3762175-3764643 | PCR product |
| pWO-168 | 5′-CATTCCGAATTGATCGCAAG-3′ | 5′-TCTCAACGTCTCTACAGTCA-3′ | 1244278-1246490 | TOPO construct |
| pXN-168 | 5′-GGCAACGGATTTTAATCCTG-3′ | 5′-GCGTAAGGAATTCCGATCT-3′ | 4044997-4047192 | TOPO construct |
| pYV-168 | 5′-CACTACAGCATCGCCAAA-3′ | 5′-TGGAAATGGGTATCCCGT-3′ | 3742524-3744887 | PCR product |
| pZU-168 | 5′-GAATGAACGCAAATGGTGG-3′ | 5′-ATCATGTTCTTTCCGTGCT-3′ | 998957-1001411 | PCR product |
a
Linking clones or restriction fragments were designated as follows. As the 26 SfiI fragments of the Marburg 168 strain were alphabetically designated from the largest (AS) to the smallest (ZS) (14), a clone that links adjacent SfiI fragments was designated by a combination of the first characters of the SfiI fragments. For example, the combination of AS and GS was designated pAG-168. Similarly, the counterpart that came from BEST195 was designated pAG-195.