Table 2.
Reference ISR sequences available in public databases for Salmonella enterica ssp. I
| Serotype designation | ISR size (bp) | Refseq | GenBank accession |
|---|---|---|---|
| (a) Genome sequences used to obtain ISRs for Salmonella enterica ssp. I at The National Center for Biotechnology Information (http://www.ncbi.nlm.nih.gov/) | |||
| 4,[5],12:i:- str. CVM23701 | 498 | NZ_ABAO00000000 | ABAO00000000 |
| Agona str. SL483 | 498 | NZ_ABEK00000000 | ABEK00000000 |
| Choleraesuis str. SC-B67 | 499 | NC_006905 | AE017220 |
| Dublin str. CT_02021853 | 499 | NZ_ABAP00000000 | ABAP00000000 |
| Heidelberg str. SL476 | 498 | NC_011083 | CP001120 |
| Heidelberg str. SL486 | 498 | NZ_ABEL00000000 | ABEL00000000 |
| Javiana str. GA_MM04042433 | 367 | NZ_ABEH00000000 | ABEH00000000 |
| Kentucky str. CDC 191 | 492 | NZ_ABEI00000000 | ABEI00000000 |
| Kentucky str. CVM29188 | 492 | NZ_ABAK00000000 | ABAK00000000 |
| Newport str. SL254 | 492 | NC_011080 | CP000604 |
| Newport str. SL317 | 492 | NZ_ABEW00000000 | ABEW00000000 |
| Paratyphi A str. ATCC 9150 | 498 | NC_006511 | CP000026 |
| Paratyphi B SPB7 | 498 | NC_010102.1 | CP000886 |
| Paratyphi C RKS4594 | 395 | NC_012125.1 | CP000857 |
| Saintpaul str. SARA23 | 498 | NZ_ABAM00000000 | ABAM00000000 |
| Saintpaul str. SARA29 | 498 | NZ_ABAN00000000 | ABAN00000000 |
| Schwarzengrund str. CVM19633 | 267 | NC_011094 | CP001127 |
| Schwarzengrund str. SL480 | 267 | NZ_ABEJ00000000 | ABEJ00000000 |
| Typhi Ty2 | 267 | NC_004631 | AE014613 |
| Typhi str. CT18 | 267 | NC_003198 | AL513382 |
| Typhimurium LT2 | 498 | NC_003197 | AE006468 |
| Virchow str. SL491 | 499 | Not yet completed | na |
| (b) Genome sequences used to obtain ISRs for Salmonella enterica ssp. I available at The Sanger Institute (http://www.sanger.ac.uk/Projects/Salmonella/) | |||
| Enteritidis PT4 NCTC 13349 | 499 | NC_011294.1 | AM933172.1 |
| Gallinarum 287/91 NCTC 13346 | 498 | NC_011274.1 | AM933173.1 |
| Hadar | 498 | NA* | NA |
| Infantis | 500 | NA | NA |
| Typhimurium DT104 NCTC 13348 | 498 | NA | NA |
| Typhimurium DT2 | 498 | NA | NA |
| Typhimurium SL1344 NCTC 13347 | 498 | NA | NA |
| Typhimurium D23580 | 498 | NA | NA |
| (c) ISR sequences for Salmonella enterica ssp. I submitted to the National Center for Biotechnology Information† | |||
| Schwarzengrund_2 | 257 | In process | In process |
| Cerro | 361 | In process | JN105120 |
| Infantis_1 | 500 | In process | JN105121 |
| Oranienburg | 365 | In process | JN105122 |
| Pullorum | 361 | In process | JN105123 |
| Senftenberg | 362 | In process | JN105124 |
| Thompson | 259 | In process | JN105125 |
| Tennessee | 258 | BankIt1458394 SEQ_018 | JN092310 |
| Mbandaka | 499 | BankIt1458394 SEQ_030 | JN092322 |
| Montevideo_1 | 362 | BankIt1458394 SEQ_031 | JN092323 |
| Montevideo_2 | 361 | BankIt1458394 SEQ_032 | JN092324 |
| Montevideo_3 | 362 | BankIt1458394 SEQ_033 | JN092325 |
| Manhatten | 258 | BankIt1458394 SEQ_036 | JN092328 |
| UN0001 | 404 | BankIt1458394 SEQ_001 | JN092293 |
| UN0002 | 360 | BankIt1458394 SEQ_002 | JN092294 |
| UN0003 | 498 | BankIt1458394 SEQ_003 | JN092295 |
| UN0004 | 362 | BankIt1458394 SEQ_004 | JN092296 |
| UN0005 | 361 | BankIt1458394 SEQ_005 | JN092297 |
| UN0006 | 365 | BankIt1458394 SEQ_006 | JN092298 |
| UN0007 | 361 | BankIt1458394 SEQ_007 | JN092299 |
| UN0008 | 530 | BankIt1458394 SEQ_008 | JN092300 |
| UN0009 | 361 | BankIt1458394 SEQ_009 | JN092301 |
| UN0010 | 498 | BankIt1458394 SEQ_010 | JN092302 |
| UN0011 | 499 | BankIt1458394 SEQ_011 | JN092303 |
| UN0012 | 498 | BankIt1458394 SEQ_012 | JN092304 |
| UN0013 | 498 | BankIt1458394 SEQ_013 | JN092305 |
| UN0014 | 395 | BankIt1458394 SEQ_014 | JN092306 |
| UN0015 | 489 | BankIt1458394 SEQ_015 | JN092307 |
| UN0016 | 396 | BankIt1458394 SEQ_016 | JN092308 |
| UN0017 | 395 | BankIt1458394 SEQ_017 | JN092309 |
| UN0019 | 258 | BankIt1458394 SEQ_019 | JN092311 |
| UN0021 | 499 | BankIt1458394 SEQ_021 | JN092313 |
| UN0022 | 498 | BankIt1458394 SEQ_022 | JN092314 |
| UN0023 | 499 | BankIt1458394 SEQ_023 | JN092315 |
| UN0024 | 499 | BankIt1458394 SEQ_024 | JN092316 |
| UN0025 | 498 | BankIt1458394 SEQ_025 | JN092317 |
| UN0026 | 498 | BankIt1458394 SEQ_026 | JN092318 |
| UN0027 | 499 | BankIt1458394 SEQ_027 | JN092319 |
| UN0028 | 499 | BankIt1458394 SEQ_028 | JN092320 |
| UN0034 | 498 | BankIt1458394 SEQ_034 | JN092326 |
| UN0035 | 498 | BankIt1458394 SEQ_035 | JN092327 |
*
Not available due to incomplete annotation.
†
Serotype names replace the unique accession number following multiple confirmations and agreement between methods.