Table 5.
Description of predicted prophage regions identified in the bacterial host strain genomes Bacteroides sp. AR20, R. albus AR67, and S. equinus strains 2B, Sb04, and Sb17.
| Prophage region | Region length (bp) | G + C content (%) | ORFs (no.) | Most common phage name (number of best hit homologous proteins)* | Additional common phage names (number of best hit homologous proteins)** |
|---|---|---|---|---|---|
| ϕBrbAR20pro1 | 27,691 | 38.6 | 32 | n.d. | Acanthocystis turfacea Chlorella virus 1 (1); Cafeteria roenbergensis virus BV-PW1 (1); Bathycoccus sp. RCC1105 virus BpV1 (1); Mycobacterium phage Kratio (1); Streptococcus virus 9872 (1); Staphylococcus phage phiN315 (1); Bacillus phage SP-15 (1); Only Syngen Nebraska virus 5 (1); Staphylococcus phage phiN315 (1); Cedratvirus A11 (1); Stx2-converting phage 1717 (1); Acanthamoeba polyphaga moumouvirus (1); Enterococcus phage EF62phi (1) |
| ϕBrbAR20pro2 | 29,595 | 46.7 | 28 | n.d. | Natrialba phage PhiCh1 (1); Gordonia phage Nyceirae (1); Bacillus phage BM5 (1); Bacillus phage vB_BanS-Tsamsa (1); Clostridium phage c-st (1); Arthrobacter phage vB_ArS-ArV2 (1); Pseudomonas phage YuA (1); Ostreococcus mediterraneus virus 1 (1) |
| ϕBrbAR20pro3 | 4,783 | 40.7 | 5 | Riemerella phage RAP44 NC_019490.1 (2) | Clostridium phage phiCT9441A (1) |
| ϕRaAR67pro1 | 5,340 | 41.5 | 9 | n.d. | Clostridium phage phiCT19406C (1); Geobacillus phage GBSV1 (1); Paenibacillus phage Vegas (1) |
| ϕRaAR67pro2 | 17,507 | 50 | 22 | n.d. | Clostridium phage phiSM101 (1); Brevibacillus phage Jenst (1); Deep-sea thermophilic phage D6E (1); Paramecium bursaria Chlorella virus FR483(1) |
| ϕRaAR67pro3 | 8,051 | 37.8 | 8 | n.d. | Bacillus phage phIS3501 (1); Thermus phage P2345 (1); Brevibacillus phage Jenst (1); Enterobacteria phage fiAA91-ss (1); Clostridium phage CDMH1 (1); Aureococcus anophagefferens virus (1) |
| ϕSb2Bpro1 | 42,367 | 38.5 | 52 | Streptococcus phage P9 NC_009819 (6) | Streptococcus phage 315.6 (6); Bacillus phage BCJA1c (4); Enterococcus phage EFC-1 (2); Staphylococcus phage X2 (2); Streptococcus phage SM1 (2); Streptococcus phage phiARI0468-2 (2) |
| ϕSb2Bpro2 | 10,673 | 38.5 | 15 | n.d. | Clostridium phage phi3626 (1); Clostridium phage phiMMP02 (1); Vibrio phage douglas 12A4 (1); Mycobacterium phage Squirty (1); Acidianus two-tailed virus (1); Geobacillus phage GBSV1 (1); Acinetobacter phage Acj9 (1) |
| ϕSeSb04pro1 | 16,394 | 37.1 | 15 | Bacillus phage SPBc2 NC_001884.1 (3) | Streptococcus phage Dp-1 (2); Bacillus virus G (1); Acanthocystis turfacea Chlorella virus 1 (1); Aureococcus anophagefferens virus (1); Cellulophaga phage phiSM (1); Bacillus phage BCD7 (1); Lactococcus phage bIL311 (1); Synechococcus phage S-SSM7(1) |
| ϕSeSb04pro2 | 6,961 | 37.9 | 9 | n.d. | Streptococcus phage 315.3 (1); Aeropyrum pernix spindle-shaped virus 1 (1); Escherichia phage phAPEC8 (1); Sphingomonas phage PAU (1); Enterobacteria phage phi92 (1); Streptococcus phage phiARI0460-1 (1); Acinetobacter phage ZZ1(1) |
| ϕSeSb04pro3 | 8,194 | 35.4 | 9 | Bacillus virus G NC_023719.1 (2) | Acanthamoeba polyphaga mimivirus (1); Planktothrix phage PaV-LD (1); Lactobacillus phage LfeInf (1); Staphylococcus phage phiIPLA-C1C(1) |
| ϕSeSb17pro1 | 12,602 | 33.1 | 21 | Streptococcus phage EJ-1 NC_005294.1 (3) | Lactococcus phage bIL310 (2); Streptococcus phage phi3396 (2); Lactococcus phage bIL311 (2); Streptococcus phage 315.3 (2) |
*
Most common phage names and NCBI Virus reference sequence IDs are listed except where the most common phage name was not determined (n.d.) as the number of best hit homologous proteins did not exceed more than one hit for any one phage.
**
Additional common names listed include those where the number of best hit homologous proteins >1. Where the number of best hit homologous proteins never exceeded more than one phage name, all phage names corresponding to each ORF best hit homologous protein match are listed.