TABLE 1.
Salmonella enterica strains sequenced in this study, by serotype
| Serotype | Isolate no. | Molecule type | Plasmid name | GenBank accession no. | Isolation source species | Isolation source details | Genome size (bp) |
|---|---|---|---|---|---|---|---|
| Berta | SA20141895 | Chromosome | CP030005 | Raccoon | NAa | 4,725,468 | |
| SA20141895 | Plasmid | pSA20141895.1 | CP030006 | Raccoon | NA | 67,730 | |
| Brandenburg | SA20064858 | Chromosome | CP030002 | Pig | Intestine | 4,677,648 | |
| SA20064858 | Plasmid | pSA20064858.1 | CP030003 | Pig | Intestine | 119,613 | |
| SA20064858 | Plasmid | pSA20064858.2 | CP030004 | Pig | Intestine | 4,593 | |
| SA20113174 | Chromosome | CP029999 | Pig | Intestine | 4,724,618 | ||
| SA20113174 | Plasmid | pSA20113174.1 | CP030000 | Pig | Intestine | 102,921 | |
| SA20113174 | Plasmid | pSA20113174.2 | CP030001 | Pig | Intestine | 4,251 | |
| Carrau | SA20041606 | Chromosome | CP030236 | NA | NA | 4,524,637 | |
| SA20041606 | Plasmid | pSA20041606.1 | CP030237 | NA | NA | 32,829 | |
| Concord | SA20094620 | Chromosome | CP030185 | NA | NA | 4,854,398 | |
| SA20094620 | Plasmid | pSA20094620.1 | CP030186 | NA | NA | 298,919 | |
| SA20094620 | Plasmid | pSA20094620.2 | CP030187 | NA | NA | 106,569 | |
| SA20094620 | Plasmid | pSA20094620.3 | CP030188 | NA | NA | 93,719 | |
| SA20094620 | Plasmid | pSA20094620.4 | CP030189 | NA | NA | 5,350 | |
| Gaminara | SA20063285 | Chromosome | CP030288 | Lizard | Blood | 4,834,965 | |
| SA20063285 | Plasmid | pSA20063285.1 | CP030289 | Lizard | Blood | 117,908 | |
| SA20063285 | Plasmid | pSA20063285.2 | CP030290 | Lizard | Blood | 3,587 | |
| SA20063285 | Plasmid | pSA20063285.3 | CP030291 | Lizard | Blood | 1,526 | |
| Grumpensis | SA20083039 | Chromosome | CP030223 | NA | NA | 4,688,830 | |
| SA20083039 | Plasmid | pSA20083039.1 | CP030224 | NA | NA | 247,246 | |
| II 56:b:1,5 | SA20053897 | Chromosome | CP029995 | Gecko | Feces | 4,920,300 | |
| SA20053897 | Plasmid | pSA20053897.1 | CP029996 | Gecko | Feces | 87,775 | |
| SA20053897 | Plasmid | pSA20053897.2 | CP029997 | Gecko | Feces | 86,128 | |
| SA20053897 | Plasmid | pSA20053897.3 | CP029998 | Gecko | Feces | 61,198 | |
| II 56:z10:e,n,x | SA20011914 | Chromosome | CP029992 | NA | NA | 4,807,680 | |
| SA20011914 | Plasmid | pSA20011914.1 | CP029993 | NA | NA | 4,593 | |
| SA20011914 | Plasmid | pSA20011914.2 | CP029994 | NA | NA | 3,904 | |
| IIIa 63:g,z51:− | SA19981204 | Chromosome | CP029991 | NA | NA | 4,598,348 | |
| IIIb 47:r:z53 | SA20021456 | Chromosome | CP030219 | NA | NA | 5,431,908 | |
| SA20021456 | Plasmid | pSA20021456.1 | CP030220 | NA | NA | 159,279 | |
| SA20021456 | Plasmid | pSA20021456.2 | CP030221 | NA | NA | 54,912 | |
| SA20021456 | Plasmid | pSA20021456.3 | CP030222 | NA | NA | 54,448 | |
| IIIb 48:i:z | SA20121591 | Chromosome | CP029989 | Snake | Colon | 5,361,355 | |
| SA20121591 | Plasmid | pSA20121591.1 | CP029990 | Snake | Colon | 121,189 | |
| IIIb 59:z10:− | SA20051472 | Chromosome | CP030026 | NA | NA | 6,125,373 | |
| SA20051472 | Plasmid | pSA20051472.1 | CP030027 | NA | NA | 169,096 | |
| IIIb 60:z52:z53 | SA20100201 | Chromosome | CP030180 | NA | NA | 5,195,044 | |
| Isangi | SA20041605 | Chromosome | CP030225 | NA | NA | 4,739,617 | |
| SA20041605 | Plasmid | pSA20041605.1 | CP030226 | NA | NA | 5,410 | |
| SA20041605 | Plasmid | pSA20041605.2 | CP030227 | NA | NA | 4,096 | |
| SA20041605 | Plasmid | pSA20041605.3 | CP030228 | NA | NA | 3,428 | |
| SA20041605 | Plasmid | pSA20041605.4 | CP030229 | NA | NA | 3,028 | |
| IV 45:g,z51:− | SA20080453 | Chromosome | CP030194 | NA | NA | 4,651,373 | |
| SA20080453 | Plasmid | pSA20080453.1 | CP030195 | NA | NA | 38,923 | |
| IV 53:z36,z38:− | SA20055162 | Chromosome | CP030238 | NA | NA | 4,640,729 | |
| Kisarawe | SA20083530 | Chromosome | CP030203 | Lizard | Feces | 5,062,813 | |
| SA20083530 | Plasmid | pSA20083530.1 | CP030204 | Lizard | Feces | 138,648 | |
| SA20083530 | Plasmid | pSA20083530.2 | CP030205 | Lizard | Feces | 33,467 | |
| SA20083530 | Plasmid | pSA20083530.3 | CP030206 | Lizard | Feces | 27,709 | |
| Kottbus | SA20051528 | Chromosome | CP030211 | Pig | Lymph node | 4,719,399 | |
| SA20051528 | Plasmid | pSA20051528.1 | CP030212 | Pig | Lymph node | 4,081 | |
| SA20051528 | Plasmid | pSA20051528.2 | CP030213 | Pig | Lymph node | 2,519 | |
| Litchfield | SA20052327 | Chromosome | CP030202 | Chicken | Ground meat | 4,763,586 | |
| Livingstone | SA20101045 | Chromosome | CP030233 | Pig | Intestine | 4,729,786 | |
| SA20101045 | Plasmid | pSA20101045.1 | CP030234 | Pig | Intestine | 94,810 | |
| Mikawasima | SA20051401 | Chromosome | CP030196 | Human | Stool | 4,869,528 | |
| SA20051401 | Plasmid | pSA20051401.1 | CP030197 | Human | Stool | 141,502 | |
| SA20051401 | Plasmid | pSA20051401.2 | CP030198 | Human | Stool | 134,274 | |
| SA20051401 | Plasmid | pSA20051401.3 | CP030199 | Human | Stool | 2,729 | |
| SA20051401 | Plasmid | pSA20051401.4 | CP030200 | Human | Stool | 2,174 | |
| SA20051401 | Plasmid | pSA20051401.5 | CP030201 | Human | Stool | 1,814 | |
| Milwaukee | SA19950795 | Chromosome | CP030175 | NA | NA | 4,822,474 | |
| SA19950795 | Plasmid | pSA19950795.1 | CP030176 | NA | NA | 148,530 | |
| SA19950795 | Plasmid | pSA19950795.2 | CP030177 | NA | NA | 131,435 | |
| Naestved | SA19992307 | Chromosome | CP030207 | Human | NA | 4,844,554 | |
| SA19992307 | Plasmid | pSA19992307.1 | CP030208 | Human | NA | 74,577 | |
| Ohio | SA20030575 | Chromosome | CP030181 | Pig | Liver | 4,772,343 | |
| SA20030575 | Plasmid | pSA20030575.1 | CP030182 | Pig | Liver | 224,430 | |
| SA20030575 | Plasmid | pSA20030575.2 | CP030183 | Pig | Feces | 94,179 | |
| SA20030575 | Plasmid | pSA20030575.3 | CP030184 | Pig | Feces | 2,318 | |
| SA20120345 | Chromosome | CP030024 | Pig | Feces | 4,755,436 | ||
| SA20120345 | Plasmid | pSA20120345.1 | CP030025 | Pig | Feces | 100,335 | |
| Oslo | SA20043041 | Chromosome | CP030231 | NA | NA | 4,603,878 | |
| SA20043041 | Plasmid | pSA20043041.1 | CP030232 | NA | NA | 87,319 | |
| Reading | SA20025921 | Chromosome | CP030214 | Bovine | Muscle | 4,882,461 | |
| SA20025921 | Plasmid | pSA20025921.1 | CP030215 | Bovine | Muscle | 152,311 | |
| SA20025921 | Plasmid | pSA20025921.2 | CP030216 | Bovine | Muscle | 104,420 | |
| Rissen | SA20104250 | Chromosome | CP030190 | Chicken | Mixed organs | 4,813,547 | |
| SA20104250 | Plasmid | pSA20104250.1 | CP030191 | Chicken | Mixed organs | 111,887 | |
| SA20104250 | Plasmid | pSA20104250.2 | P030192 | Chicken | Mixed organs | 4,096 | |
| SA20104250 | Plasmid | pSA20104250.3 | CP030193 | Chicken | Mixed organs | 2,264 | |
| Telelkebir | SA20075157 | Chromosome | CP030217 | NA | NA | 4,716,530 | |
| SA20075157 | Plasmid | pSA20075157.1 | CP030218 | NA | NA | 97,234 | |
| Uganda | SA20031245 | Chromosome | CP030235 | NA | NA | 4,522,338 | |
| Yoruba | SA20044414 | Chromosome | CP030209 | NA | Feed for fish | 4,805,225 | |
| SA20044414 | Plasmid | pSA20044414.1 | CP030210 | NA | Feed for fish | 92,624 |
a
NA, not applicable.