Table S1. 163Phcm1 Core Genes Identified Froma Global Collection 20 S. Typhi Resistance

Table S1. 163 pHCM1 core genes identified from a global collection 20 S. Typhi resistance plasmids Gene ID Gene name Description HCM1.001c putative membrane protein HCM1.002c hypothetical protein HCM1.003c hypothetical protein HCM1.007c corA putative magnesium and cobalt transport protein HCM1.008 hypothetical protein HCM1.010c hypothetical protein HCM1.013c hypothetical protein HCM1.015c putative membrane protein HCM1.017c hypothetical protein HCM1.020c hypothetical protein HCM1.021c hypothetical protein HCM1.022c putative membrane protein HCM1.023c hypothetical protein HCM1.024c hypothetical protein HCM1.030c hypothetical protein HCM1.031c putative membrane protein HCM1.032c hypothetical protein HCM1.033c hypothetical protein HCM1.034c hypothetical protein HCM1.035c hypothetical protein HCM1.036c hypothetical protein HCM1.038c hypothetical protein HCM1.039c hypothetical protein HCM1.040c hypothetical protein HCM1.041 hypothetical protein HCM1.042 hypothetical protein HCM1.043 hypothetical protein HCM1.043a hypothetical protein HCM1.044 hypothetical protein HCM1.045 hypothetical protein HCM1.046 hypothetical protein HCM1.048c hypothetical protein HCM1.049c putative periplasmic protein HCM1.050 putative periplasmic protein HCM1.051 hypothetical protein HCM1.052 hypothetical protein HCM1.053 hypothetical protein HCM1.054 repA replication initiation protein HCM1.055ac hypothetical protein HCM1.055c putative periplasmic protein HCM1.056ac hypothetical protein HCM1.056c putative periplasmic protein HCM1.057c hypothetical protein HCM1.058c putative DNA-binding protein HCM1.059 putative DNA modification methylase HCM1.060c hypothetical protein

1 HCM1.061c hypothetical protein HCM1.062c hypothetical protein HCM1.063c hypothetical protein HCM1.064 repA2 replication initiation protein HCM1.067 trhA putative pilin precursor HCM1.069 trhL putative plasmid transfer protein HCM1.070 putative pilus assembly protein HCM1.071 putative periplasmic protein HCM1.072 putative membrane protein HCM1.073 trhB putative plasmid transfer protein HCM1.074 hypothetical protein HCM1.075 putative plasmid transfer protein HCM1.076 trhV putative plasmid transfer protein HCM1.077 trhC plasmid transfer protein HCM1.086 putative plasmid partition protein HCM1.087 putative plasmid partition protein HCM1.088c putative periplasmic protein HCM1.089c putative lipoprotein HCM1.090c putative periplasmic protein HCM1.091c hypothetical protein HCM1.092 putative plasmid stability/partition protein HCM1.093 hypothetical protein HCM1.094 htdA transfer repressor HCM1.095 htdF putative periplasmic protein HCM1.096 hypothetical protein HCM1.097 putative periplasmic protein HCM1.098 trhF putative pilin maturation protein HCM1.099 trhW plasmid transfer protein HCM1.100 trhU plasmid transfer protein HCM1.101 trhN plasmid transfer protein HCM1.107 trhI putative DNA helicase HCM1.108 putative membrane protein HCM1.109 hypothetical protein HCM1.110 hypothetical protein HCM1.111 hypothetical protein HCM1.112 hypothetical protein HCM1.114 hypothetical protein HCM1.116 hypothetical protein HCM1.116a hypothetical protein HCM1.117 hypothetical protein HCM1.118 hypothetical protein HCM1.119 hypothetical protein HCM1.120 hypothetical protein HCM1.121 hypothetical protein HCM1.122 hypothetical protein HCM1.123 hypothetical protein HCM1.124 hypothetical protein HCM1.125 putative membrane protein HCM1.126 hypothetical protein

2 HCM1.127 hypothetical protein HCM1.128 putative membrane protein HCM1.130 hypothetical protein HCM1.131 putative DNA replication terminus site-binding protein HCM1.132 hypothetical protein HCM1.133 putative membrane protein HCM1.134c putative recombinase HCM1.135 putative regulatory protein HCM1.141 hypothetical protein HCM1.141ac hypothetical protein HCM1.142c hypothetical protein HCM1.143 hypothetical protein HCM1.144 hypothetical protein HCM1.145 hypothetical protein HCM1.146 hypothetical protein HCM1.166c putative aminoglycoside acetyltransferase HCM1.167 putative integrase HCM1.175 putative DNA-binding protein HCM1.176 hypothetical protein HCM1.177 hypothetical protein HCM1.178ac putative HN-S type DNA-binding protein HCM1.179c hypothetical protein HCM1.180c hypothetical protein HCM1.181 hypothetical protein HCM1.182 hypothetical protein HCM1.183 hypothetical protein HCM1.184c hypothetical protein HCM1.185c hypothetical protein HCM1.186c hypothetical protein HCM1.187c putative DNA modification methylase HCM1.188 putative nuclease HCM1.189 hypothetical protein HCM1.190 hypothetical protein HCM1.250c putative periplasmic protein HCM1.251c hypothetical protein HCM1.252 mucA putative DNA-repair modulator HCM1.253 putative DNA-repair modulator HCM1.254c putative outer membrane protein HCM1.255 putative lipoprotein HCM1.256c putative membrane protein HCM1.257c putative periplasmic protein HCM1.258c putative thiol-disulfide interchange protein HCM1.259 hypothetical protein HCM1.261 hypothetical protein HCM1.263c putative pilus-assembly protein HCM1.264c putative pilus-assembly protein HCM1.266c hypothetical protein HCM1.268c hypothetical protein HCM1.269 hypothetical protein

3 HCM1.270 hypothetical protein HCM1.271 hypothetical protein HCM1.272 putative membrane protein HCM1.273 hypothetical protein HCM1.275 putative membrane protein HCM1.276 putative peptidase HCM1.277 putative periplasmic protein HCM1.278c hypothetical protein HCM1.279ac putative membrane protein HCM1.279c putative membrane protein HCM1.280c hypothetical protein HCM1.281c hypothetical protein HCM1.282 hypothetical protein HCM1.283c hypothetical protein HCM1.284c hypothetical protein HCM1.286c putative DNA-binding protein HCM1.287c hypothetical protein HCM1.288 hypothetical protein HCM1.290c putative stable plasmid inheritance protein Hok type