TABLE 3.
Comparison of VP16T and VP16C ORFs with clones from three uncultured marine phage libraries (Scripps Pier, Mission Bay water, and Mission Bay sediment)
| VP16T
|
VP16C
|
|||||||
|---|---|---|---|---|---|---|---|---|
| Library or clonea | Similarityb | ORF | Score (bits)/ E value | Identityc | ORF | Score (bits)/ E value | Identityc | VP16 blastd |
| MBSP9F5 | NSS | 3 | 137/1e-033 | 78/207 (37) | 3 | 129/5e-031 | 66/163 (44) | Terminase |
| MB61p11B3 | Phage, prophage | 3 | 106/4e-024 | 82/281 (29) | 3 | 120/2e-028 | 86/280 (30) | Terminase |
| MBSP14E11 | Phage, prophage | 3 | 54/2e-008 | 64/258 (24) | Terminase | |||
| MB61p1E10 | Phage, prophage | 3 | 44/3e-005 | 20/43 (46) | Terminase | |||
| MBSP1C7 | Phage, prophage | 6 | 44.5/8e-006 | 45/164 (27) | 6 | 47/2e-006 | 44/173 (25) | |
| SIO51p7G4R | NSS | 8 | 118/5e-028 | 58/142 (40) | 8 | 112/2e-026 | 58/142 (40) | Capsid protein |
| MBSP10G8 | Tape measure | 16 | 44/2e-005 | 24/97 (24) | 16 | 47/2e-006 | 30/114 (26) | Tape measure |
| MBSP3B7 | NSS | 21 | 416/ e-118 | 203/204 (99) | 21 | 319/5e-089 | 154/204 (75) | Tail fiber protein |
| MBSP3B7 | NSS | 22 | 41/2e-010 | 37/38 (97) | 22 | 41/2e-010 | 37/38 (97) | Tail fiber protein |
| MBSP6G6 | NSS | 25 | 44/1e-005 | 36/88 (40) | 25 | 39/4e-004 | 38/130 (29) | Tail fiber protein? |
| SIO51p6B10L | Prophage | 26 | 69/2e-014 | 39/147 (26) | Transcription regulator | |||
| MB61p10D6 | NSS | 26 | 70/8e-014 | 52/162 (32) | Transcription regulator | |||
| SIO51p4H6L | SPO2 polymerase | 38 | 102/5e-023 | 60/197 (30) | 39 | 103/3e-023 | 63/195 (32) | DNA polymerase |
| SIO51p4H6R | NSS | 38 | 92.5/6e-020 | 51/122 (41) | 39 | 47/3e-006 | 25/59 (42) | DNA polymerase |
| MBSP15G9 | Phage polymerase | 39 | 56/5e-009 | 63/234 (26) | DNA polymerase | |||
| SIO51p9E7R | NSS | 42 | 42/4e-005 | 37/146 (25) | ||||
| SIO51p10A1R | Phage replication module | 44 | 173/2e-044 | 88/201 (43) | 45 | 176/4e-045 | 91/208 (43) | Helicase |
| SIO51p4E5L | Helicase | 44 | 89/5e-019 | 50/161 (31) | 45 | 91/2e-019 | 49/141 (34) | Helicase |
| MB61p3F12 | Bacterial chormosome | 44 | 40.5/2e-004 | 24/67 (36) | Helicase | |||
Uncultured marine phage libraries were constructed for the following locations: Scripps Pier, representing an open ocean environment; Mission Bay, representing a shallow, near-coast environment with a lot of human presence; and Mission Bay sediment, a sample taken from the sediment found just underneath the Mission Bay water sample (10; Breitbart and Rohwer, unpublished data). Despite their proximity, the Mission Bay water and sediment libraries are very different both in the apparent types and in the diversity of the phages present (Breitbart and Rohwer, unpublished data). The clones from the uncultured libraries that are similar to both the VP16T and VP16C phages are underlined.
Similarities to either phages, known or putative prophages, parts of phages or known genes, or bacterial chormosomes. NSS, no significant similarity to any GenBank entry.
Number of identical residues/total number of residues (percentage of identical residues).
The closest function suggested by the BLAST results listed in Table 2.