Table 1 Unique orthologous protein clusters in some selected S. Typhimurium strains in comparison to reference genomes

LT2—STm07, STm12, STm16, STm19, STm20, STm21, STm22, STm24, STm25, STm26 and STm27 (Comparison 1)

Transposition (DNA-mediated), transposition, viral procapsid maturation, virion attachment to host cell, viral genome integration into host DNA, trehalose transport, DNA replication, viral capsid assembly, DNA binding, histidine catabolic process to glutamate and formate

LT2—STm01 and STm08 (Comparison 2)

Transposition (DNA-mediated), transposition, viral genome integration into host DNA, virion attachment to host cell, DNA replication, trehalose transport, DNA replication initiation, viral procapsid maturation, formate oxidation, DNA binding

LT2—STm04, STm09, STm10, STm11, STm13 and STm14 (Comparison 3)

Transposition (DNA-mediated), transposition, viral genome integration into host DNA, trehalose transport, histidine catabolic process to glutamate and formate

LT2—STm02, STm03 and STm05 (Comparison 4)

Transposition (DNA-mediated), transposition, viral procapsid maturation, viral genome integration into host DNA, trehalose transport, DNA replication, response to mercury ion, mercury ion transmembrane transporter activity, formate oxidation, DNA restriction-modification system

14028S—13,609/06, 6346/10, 9109/10, 9479/10, 948/12, 1103/12 and 1104/12 (Comparison 5)

Transposition (DNA-mediated), transposition, formate oxidation, trehalose transport, cell adhesion, DNA binding

D23580—STm29, STm30, STm34, STm35, STm37, STm39, STm40, STm44 and STm47 (Comparison 6)

Transposition (DNA-mediated), transposition, formate oxidation, trehalose transport, lyase activity, viral tail assembly, cell adhesion

D23580—STm29, STm30, STm34, STm35, STm36, STm37, STm39, STm40, STm44, STm47 and 3057/10 (Comparison 7)

Transposition (DNA-mediated), formate oxidation, trehalose transport, lyase activity, cell adhesion, metal ion binding