Table 4. Summary of results of genomic analysis performed.
| Chromosomal location of single nucleotide change (SNC)a | Present in strain | Nature of change | Position relative to nearby genes | Identification of gene affected | Likely consequence on protein product |
| 282402 | ΔfliHI/flhB* | C→A | Intergeneic region between pseudogene cutF and proS (prolyl-tRNA synthetase) | None | NA |
| 1248480 b | HM18 | T→C | Intergeneic region between dinI (DNA damage inducible protein I and pyrC (dihydroorotase) | None | NA |
| 4080164 | HM18 | C→A | NA | atpB (F0F1 ATP synthase subunit A) | Disruption of start codon, new in frame ATG 12 nt down stream, truncation of 5 amino acids of predicted periplasmic N-terminus of AtpB |
| 4080165 | HM18 | C→A | NA | atpB (F0F1 ATP synthase subunit A) | Likely not translated due to SNC 4080164, new in frame ATG 11 nt down stream |
| 4189753 | HM18 | G→A | NA | fadA (3-ketoacyl-CoA thiolase, also known as multifunctional fatty acid oxidation complex subunit α) | Stop codon introduced, last 147 C-terminal amino acids missing |
| 2008607 | DI15 | C→G | NA | flhA (core inner membrane component of the flagellar export apparatus) | Single amino acid change introduced, A562P |
a
Defined by whole-genome Illumina sequencing and comparison to the Salmonella Typhimurium LT2 chromosome (RefSeq:NC_003197) and the 100-Kb plasmid pSLT (RefSeq:NC_003277). No differences were found between the plasmid of the LT2 reference and the two test strains.
b
Note that this mutation (but no other) was also found in HM16 and DI13, which are not further described here, but not in ΔfliHI/flhB*. We thus assume it to be phenotypically silent.