Table 3 The results obtained from the RDP4 analyses exhibiting the recombination beginning and end breakpoints across the LGT-affected genetic loci, and the trajectories of the LGT events of these loci, involving the Salmonella phages and E. coli strains
Recombinant strain (GenBank acc. #) | Major donor (GenBank acc. #) | Minor donor (GenBank acc. #) | CDS, for a protein, within a phage genomic region examined (Coordinates in a phage genome [size in bps]) | Recombination beginning and end breakpoints (99% Cl) * | P-value generated by the RDP4 algorithm | ||||
|---|---|---|---|---|---|---|---|---|---|
Salmonella phage VSe11 (MG251391.1) | E. coli strain E32511 (CP038380.1) | E. coli strain A1 (CP029328) | Hypothetical protein (ID: AUE22344.1) CDS: <1.>544. (41445.41988 [544]) | 324 (454 − 440) – 484 (454 − 440) | RDP: GENECONV: BootScan: MaxChi: Chimaera: SiScan: 3Seq: | 7.426 × 10− 03 4.133 × 10− 02 7.537 × 10− 03 7.987 × 10− 05 7.363 × 10− 03 1.548 × 10− 05 6.100 × 10− 03 |  | ||
Salmonella phage vB_SPuM_SP116 (NC_027329.1) | E. coli strain B16EC1113 (CP088725.1) | E. coli strain F070 (AP023237.1) | Hypothetical protein (ID: YP_009146313.1) CDS: <1.>542. (45739.46280 [542]) | 402 (199 − 197) – 50 (199 − 197) | RDP: GENECONV: BootScan: MaxChi: Chimaera: SiScan: 3Seq: | 9.653 × 10− 03 - 2.397 × 10− 03 4.388 × 10− 03 2.853 × 10− 03 - 5.797 × 10− 03 |  | ||
Salmonella phage vB_SPuM_SP116 (NC_027329.1) | Unknown | E. coli strain RHB36-C10 (CP057129.1) | Hypothetical protein (ID: YP_009146313.1) CDS: <1.>542. (45739.46280 [542]) | Undetermined (71[position 71 without gaps]) – Undetermined (225 [position 225 without gaps]) | RDP: GENECONV: BootScan: MaxChi: Chimaera: SiScan: 3Seq: | - - - 2.707 × 10− 02 - 3.729 × 10− 03 2.221 × 10− 02 |  | ||