Table 5.
Circular genome scaffold (CGS) groups with multiple phage-plasmid-like genes.
| Virus group and assignment | Notable genes (BLASTX of predicted genes, GenBank NR, E-value <10−5) | Scaffold | Length (bp) | Coverage |
|---|---|---|---|---|
| G1 | ||||
| VirE (Virulence), DNA pol A | CY1_24_716 | 37683 | 225.8 | |
| VirE (Virulence), Terminase, DNA pol A | CY1_24_11561 | 38498 | 12.6 | |
| Putative phage-plasmid | ParA, ParB, Integrase, IbrA/B CRISPR/Cas system | CY1_63_1964 | 80578 | 30.2 |
| Lysogenic phage | IbrA, IbrB/ParBc, DNA pol A | CY1_24_2481 | 54228 | 61.2 |
| G8 | ||||
| Putative satellite phage | Photolyase, Phage Integrase, Primase, Cro/Cl | CY1_53_534 | 14105 | 18.2 |
| Putative satellite phage | Prim-pol (P4 like with D5_N region), Integrase | CY1_53_1886 | 15192 | 22.9 |
| Putative satellite phage | ParB, Terminase,Resolvase, Phage tail, Prim-Pol, Integrase(P4) | ML_43_3791 | 15770 | 48.6 |
| G10 | ||||
| Lysogenic phage | Integrase, Terminase | CY1_53_17 | 37329 | 92.6 |
| Putative phage-plasmid | ParA, ParB, Toxin (PemK), Antitoxin, Terminase | ML_43_489 | 37582 | 69.7 |
| Putative phage-plasmid | Antitoxin (RelB), ParB, Lipase_GDSL, Terminase | ML_33_2393 | 38190 | 40.0 |
| Putative phage-plasmid | Toxin, Antitoxin (P2 like), Integrase, ParA, Terminase | CY1_53_144 | 15551 | 20.2 |
Bold text denotes phage-plasmid-like genes., Cro/Cl, part of phage repressor/antirepressor; VirR, virulence associated protein; IbrA/B, co activators of prophage gene expression; CRISPR, clustered regularly interspaced shore palindromic repeat; P2, phage-plasmid P2; P4, satellite phage P4; ParA/B, Plasmid partition genes; Prim-pol, bifuncational phage-like primase polymerase.