TABLE 1.
Genomic features for the pelagimyophages analyzed in this study
| PMP | Group | Mean igs (bp)a |
Length (bp) |
GC content (%) |
No. of tRNAs |
No. of genes |
Complete- nessb |
No. of matchesc
to: |
Habitatd | Sample typee |
Reference(s) | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SAR11 | PMP core | |||||||||||
| HTVC008M | A | 23.87 | 147,284 | 33.45 | 0 | 199 | Yes (Cu) | 9 | 23 | M | C | 10 |
| Io7-C40 | A | 21.35 | 103,430 | 33.11 | 2 | 117 | No | 11 | 17 | M | MG | 13 |
| MAVG02 | A | 25.5 | 157,661 | 33.98 | 0 | 216 | Yes (Al) | 10 | 20 | M | MG | 14 |
| MAVG05 | A | 21.49 | 164,624 | 32.74 | 2 | 228 | Yes (Al) | 15 | 37 | M | MG | 14 |
| PMP-MAVG-4 | A | 21.59 | 179,730 | 32.04 | 0 | 242 | Yes (Al) | 21 | 24 | M | MG | 93 |
| PMP-MAVG-12 | A | 15.54 | 104,791 | 33.36 | 0 | 131 | No | 5 | 20 | M | MG | 92 |
| PMP-MAVG-18 | A | 23.35 | 153,977 | 32.58 | 1 | 197 | No | 17 | 25 | M | MG | 93 |
| PMP-MAVG-21 | A | 24.53 | 135,163 | 31.59 | 0 | 195 | No | 11 | 24 | M | MG | 93 |
| PMP-MAVG-25 | A | 25.56 | 142,712 | 31.7 | 0 | 204 | Yes (Al) | 19 | 24 | M | MG | 93 |
| PMP-MAVG-8 | A | 14.28 | 118,694 | 31.91 | 0 | 159 | No | 13 | 14 | M | MG | 91 |
| PMP-MAVG-2 | B | 15.66 | 139,426 | 32.4 | 0 | 189 | No | 7 | 28 | M | MG | 92 |
| PMP-MAVG-3 | B | 16.98 | 147,773 | 32.66 | 0 | 200 | Yes (Al) | 8 | 23 | M | MG | 14, 92 |
| PMP-MAVG-14 | B | 18.64 | 136,460 | 32.92 | 2 | 186 | No | 11 | 27 | M | V | 91 |
| PMP-MAVG-16 | B | 28.57 | 132,453 | 32.99 | 3 | 179 | Yes (TR) | 5 | 25 | M | MG | 93 |
| PMP-MAVG-19 | B | 24.69 | 149,077 | 34.83 | 2 | 199 | Yes (TR) | 9 | 18 | M | MG | 93 |
| PMP-MAVG-26 | B | 25.6 | 142,788 | 32.48 | 0 | 193 | No | 7 | 29 | M | MG | 91 |
| PMP-MAVG-1 | C | 26.18 | 118,124 | 33.71 | 1 | 154 | No | 4 | 11 | M | MG | 41 |
| MAVG04 | C | 26.64 | 159,588 | 34.12 | 2 | 211 | Yes (Al) | 5 | 12 | M | MG | 14 |
| PMP-MAVG-9 | C | 21.81 | 124,621 | 33.95 | 1 | 165 | No | 6 | 10 | M | MG | 41 |
| PMP-MAVG-10 | C | 13 | 127,706 | 32.6 | 0 | 177 | No | 8 | 15 | M | V | 91 |
| PMP-MAVG-17 | C | 21.52 | 149,073 | 34.51 | 3 | 200 | No | 5 | 13 | M | MG | 93 |
| PMP-MAVG-22 | C | 15.6 | 103,989 | 34.17 | 0 | 129 | No | 2 | 10 | M | MG | 93 |
| PMP-MAVG-24 | C | 21.72 | 116,502 | 34.74 | 1 | 162 | No | 1 | 11 | M | MG | 93 |
| PMP-MAVG-15 | D | 21.52 | 144,833 | 31.3 | 3 | 193 | Yes (TR) | 6 | 6 | F | V | 93 |
| PMP-MAVG-20 | D | 21.3 | 122,912 | 31.08 | 3 | 174 | No | 8 | 6 | F | V | 93 |
| PMP-MAVG-5 | E | 26.22 | 149,934 | 33.6 | 3 | 190 | Yes (TR) | 4 | 10 | M | MG | 41 |
| PMP-MAVG-6 | E | 27.22 | 135,833 | 33.58 | 1 | 176 | No | 4 | 17 | M | MG | 41 |
| PMP-MAVG-7 | E | 32.87 | 135,598 | 33.82 | 2 | 171 | No | 2 | 14 | M | MG | 41 |
| PMP-MAVG-11 | E | 27.05 | 141,312 | 34.54 | 1 | 177 | Yes (Al) | 5 | 16 | M | MG | 41 |
| PMP-MAVG-13 | E | 24.74 | 155,847 | 34.2 | 0 | 208 | Yes (Al) | 3 | 16 | M | V | 91 |
| PMP-MAVG-23 | E | 19.87 | 110,977 | 34.96 | 2 | 146 | No | 4 | 10 | M | MG | 93 |
a
Igs, intergenic spacer.
b
How completeness was found is shown is parentheses: Cu, cultivated; Al, alignment; TR, terminal repeats.
c
Protein matches, based on BLASTN hits with at least 70% similarity and an alignment length between 70% and 130% of the length of the smaller protein.
d
M, marine; F, freshwater.
e
C, culture; MG, metagenome; V, virome.