TABLE 4.
Signature nucleotide substitutions unique to individual clades of S. Enteritidis strains
Individual alignment position numbers are given following the individual locus. Except for substitutions linked to footnotes c and d, all other substitutions listed are primary signature substitutions, meaning that the presence of an individual particular sequence change in a strain defines it as being part of this clade. Nucleotide substitutions in boldface type are the selected minimal set of SNPs to form a SNP-based diagnostic scheme for strain evaluation. Each brace applies only to the column in which it appears.
Signature substitution shared by all S. Enteritidis strains compared to the outgroup S. Berta strain.
Shared signature substitution of clades IIC and IID, shared only between clades IIC and IID.
Secondary signature substitution, depending on the presence of the signature substitution for clade II.