TABLE 3.
CRISPR spacers of different V. cholerae classical biotype strains show identity to known Vibrio phages
| Annotated spacera | Sequence | Matching phage(s) (% identity)b |
|---|---|---|
| O395:1 | CAAATGGCTCAATGCGCGATTGACTACGTTACT | CP-T1 (100), 24 (100) |
| O395:2 | CAATCAACGCACTAGACAACGCCCAAATGAACC | — |
| O395:3 | CAACGCTATGCCCGCTAAAATCAGTAAACAAGA | — |
| O395:4 | TATATTTCGCTCCCGTCTCGTCAACTAAAATCA | — |
| O395:5 | CTTCAAATAAGTAACCAGCCTCTGACGCTGTTA | — |
| O395:6_A50:4_A57:1 | CACCGCTAATCATGGTGGAACGAACGCCATCAA | — |
| O395:7_A50:5_A57:2 | TGATTTTGGAAGTAATGGGAACTGAGCGTTAAG | — |
| O395:8_A50:6 | CCAAAAACCTACGCGGTTTTAAATGGATTCGAC | — |
| O395:9_A50:7 | TATCTTGGTTTTGCAGGTTGTTAATCTCAGCGT | — |
| O395:10_A50:8 | TGATTGGTTCCAGTTTATGACAAGAACCAACAC | — |
| O395:11 | TACATTGGCAAGACGTTTGTTTTTCGCTGTGTA | — |
| O395:12_A50:9 | CGACTTTTGCATCATCGATGTACGGAACGCTAG | — |
| O395:13_A50:25 | CACTGAGATTGCGTGTCGCCGACTTGCGCTTGC | — |
| O395:14_A50:10 | TAGACTATCAATGTGCGCTTGCAAGTCTTTTAA | — |
| O395:15_A50:11 | TTGATCGCTCTGAAATTGTGACTTGTTTTGTTA | — |
| O395:16_A50:12 | TAGATCTTAATTGTTCGCGTTGAATGGGAAATT | — |
| O395:17_A50:13 | CAGATTGTAGATAAGCAGGAGACTGCCCACCAG | — |
| O395:18_A50:22_A68:1_A111:4 | CGGTTGATAAAACGCTGCGTAAGTTTTTCGAAG | — |
| O395:19_A50:23_A68:2_A111:5 | TAAAACTTCATAGATTGTTGCCTCCATTGTTTC | — |
| O395:20_A50:24_A68:3_A111:6 | TACGTCAACGGACAAACCAAAACCGAATGGAAG | phi2 (100), X29 (100) |
| O395:21_A111:12 | TAAGTAACGCTGCTACTGCCCTGAGCTAGTACC | — |
| O395:22_A50:26_A111:13 | TACTGGCCGATGAGGTGGACCGCTACGGCTTCA | X29 (100), phi2 (97) |
| O395:23_A50:27_A68:7_A111:14 | TCACCCAGCACATTACCACCCATGATCAGCGTT | X29 (100), phi2 (97) |
| O395:24_A50:28_A68:8_A111:15 | CGAGTGGGTTTAGGTTGTAGGTTGCACATACGC | — |
| O395:25_A50:29_A68:28_A111:35 | TTCGAAAAGCTATTAGGCGGCATAACCACAGTT | — |
| O395:26_A50:30_A68:29_A111:36 | CAACAAACCAGCCACTTTGCATTTTGTAGCAGA | — |
| O395:27_A50:31_A57:3_A68:30_A111:37 | TGGAAGTTATTTATATTGGACCTGATTGCACGG | — |
| O395:28_A50:32_A57:4_A68:31_A111:38 | TACTTTGGGCCTTGTTTTATGTGCCAGTGCCCG | — |
| O395:29_A50:33_A57:5_A68:32_A111:39 | CCACTATTTCAATAATCGGCGTAGCTCCGACTG | — |
| O395:30_A50:34_A57:6_A68:33_A111:40 | CGTAATCTTCTTTGTCTGAGTAATCCAAAATAC | — |
| O395:31_A50:35_A57:7_A68:34_A111:41 | TCATGGCAGCGATATTTGTTTTACCCTTCATAC | — |
| O395:32_A50:36_A57:8_A68:36_A111:43 | CATCTGGAACGCACTCAAGCGGCAATCCGAAGT | — |
| O395:33_A57:9_A68:37_A111:44 | CAGCAATGTGTTATCCAATGCGAAAGCGCCGTT | — |
| O395:34_A57:10_A68:38_A111:45 | TATTTTGCGTATCACCGAAGCGCTGTAGGTTAT | — |
| O395:35_A50:37_A57:11_A68:39_A111:46 | TACGTCCAGCATTACCGCCGCGCCGTGTCGAGT | — |
| O395:36_A50:38_A57:12_A68:40_A111:47 | TCCTCCCTGCTCATATGCCGTTAAAACTTTCTC | — |
| O395:37_A57:13_A68:41_A111:48 | TCTGATGCGGCAAGCTCTTTCGCTAGCTCGATT | — |
| O395:38_A50:39_A57:14_A68:42_A111:49 | TACAACATCCATGCAAGCGGCAAAGAATACAAA | — |
| O395:39_A50:40_A57:15_A68:43_A111:50 | CCTCTTTAATCGAATTCCATAACGGTGACGTTAA | — |
| A50:1 | TGATAAAACTTACGAATTGTTTATTAGCGATGG | CP-T1 (94), 24 (94) |
| A50:2 | TATAGAGGATCACCATAATATTAACGTAAAAAT | CP-T1 (100), 24 (100) |
| A50:3 | CACTGACTCGCCAAGCTTCGCCACCGCTTCTAG | — |
| A50:14 | CGCTTCTGTAGAGGTGATGGGTCCAAAGATGTT | phi2 (100), X29 (100) |
| A50:15 | TACATTCGTGATATCAGCGGATGCGCTTGGTCA | phi2 (100), X29 (100) |
| A50:16 | CAAGGAAATTTGCTACCAAAAGACGTGATCGAG | phi2 (100), X29 (100) |
| A50:17 | CCAAGCAGCAATAAAAATGGAGAGCAATCCTAT | phi2 (100), X29 (100) |
| A50:18 | CCAAAGCAATTCAACAGAGGCCATCAATCGCCT | — |
| A50:19 | TATTGCATTGAATTGCCCCACTCTTTGACCACA | — |
| A50:20 | TCAAAATACTTCTCGCACATCCTGCAAGCGCTG | — |
| A50:21 | CCGAATACAACGGGCAAGCCTGCGCTAACGTTC | phi2 (100), X29 (100) |
| A68:4_A111:7 | CAGTTACCTGACCAGCAAACAAAGCTTCAGCAG | phi2 (100), X29 (100) |
| A68:5_A111:8 | CGCTTTGCTATAAGCGCGGCATACTTTACCCCG | — |
| A68:6_A111:9 | CCATCCTTTCAGCAAGGGTGAGAAGGCTTGCAA | phi2 (100), X29 (100) |
| A68:9_A111:16 | TCAATTTTCAGTGCAGAGTTTGCAGCCGGAATG | X29 (100), phi2 (97) |
| A68:10_A111:17 | TAAAGCTCTTTATACTCGCCTTGTCCAAACATC | X29 (100), phi2 (94) |
| A68:11_A111:18 | TAAAGCCAAGCTCTAACGCTTCTGAGGCTGTCA | X29 (100), phi2 (94) |
| A68:12_A111:19 | CAACTCACGCGCAGACTATGACGACATACACAG | — |
| A68:13_A111:20 | TTGACTTGGCCGTGAAATCACCAGAACTACCGA | — |
| A68:14_A111:21 | CAGACTCTTTTTTATCGCTAATACCAACTGGTG | — |
| A68:15_A111:22 | TCTATCACCAATAGTTTCAGTCTCTTTTACTAT | — |
| A68:16_A111:23 | TAAAAGAAGGGCTTCAGTAGATGGGCTTTCAGC | — |
| A68:17_A111:24 | CACTGTACTGTCCAACGTGCCCAGTGTAGCGGT | — |
| A68:18_A111:25 | TTGAGATAGAAAAATCAATATGACGCGCAGCAG | — |
| A68:19_A111:26 | TTGGCTGTTTGAGTGTGAGGATATACTTGTCAT | — |
| A68:20_A111:27 | TACGTTTTGGTGCAACCGATTTAAAGCTATCTT | — |
| A68:21_A111:28 | CAGAATTCACAATGTTTTTGCGCTCATCAGGCG | — |
| A68:22_A111:29 | CAACTCGCCTTTTTTCACGATGCCATCATAACT | — |
| A68:23_A111:30 | CAAGTCGCTCTTTACACTCGATGCAGTGACGCG | — |
| A68:24_A111:31 | TTCTACGCCTTGGAGCCGAAAAATTCAGAGAGC | — |
| A68:25_A111:32 | CCAAACCAAGCAAGTTTGGAAGCCTGATACACT | — |
| A68:26_A111:33 | CAAAACCAATGCTAAACTATACCAATAAACATT | — |
| A68:27_A111:34 | CACACAAAACCGTGATACACTTCACATAACGAA | — |
| A68:35_A111:42 | TAAAAACATTGATGCTTGCAGGATGGCTTTTCA | X29 (94), phi2 (94) |
| A111:1 | CAAAAAGCCTCTGTTATGCCTTCTGATTTTTTG | phi2 (100), X29 (100) |
| A111:2 | CAGAGCGTCAGGTCATCCGCAGTTTTGCAAACC | phi2 (100), X29 (100) |
| A111:3 | TGAGAATACGCCTAGCGATACAATGTACCGTAT | phi2 (100), X29 (100) |
| A111:10 | TGCCTATTGTGTATCGGTCCTGACCGCTTTGAT | X29 (100) |
| A111:11 | CAGGCGAAACGTCTCTCGCACGTAAATCAGGTC | X29 (100), phi2 (94) |
a
The CRISPR spacer numbering for each strain is according to the numbering in Fig. 1A.
b
The sequence of each spacer was compared with the sequences in the NCBI sequence database using the BLASTN program. Matches are indicated for sequences with 80 to 100% identity. CP-T1, 24, phi2, and X29 are all Vibrio phages. —, the spacer sequence does not match any sequence.