Table 1.
Serotype of Salmonella enterica ssp. I as determined by the KW scheme, DNAhyb, and dkgB-linked ISR
| Accession Number | KW scheme | DNAhyb | ISR | ISR size | Supplier | Source | Locality | Category |
|---|---|---|---|---|---|---|---|---|
| (a) Submissions with agreement between DNA-based genomic methods DNAhyb and ISR, and with no conflict to serotype as reported using the KW scheme [115] | ||||||||
| 21027 | Enteritidis | Enteritidis 2994.G | Enteritidis | 499 | ESQRU, ARS, USDA | Mouse spleen | Northeast US | TP |
| 21046 | Enteritidis | Enteritidis 2994.G | Enteritidis | 499 | ESQRU, ARS, USDA | Mouse spleen | Northeast US | TP |
| 22079 | Enteritidis | Enteritidis 2994.G | Enteritidis | 499 | UC | Creek | California | TP |
| 23023 | Pullorum | Gallinarum Pullorum 2978.H | Pullorum | 361 | ESQRU, ARS, USDA | Unknown | Unknown | TP |
| 24018 | Newport | Newport 12427 | Newport | 498 | NVSL | Unknown | Unknown | TP |
| 25001 | Agona | Agona 7205 | Agona | 498 | SGSC | Unknown | Peru | TP |
| 25006 | Choleraesuis | Choleraesuis or Paratyphi C 13545 | Cholerasuis | 499 | SGSC | Unknown | Thailand | TP |
| 25012 | Dublin | Dublin (probability 99.92%) 2488 | Dublin | 499 | SGSC | Cattle | Idaho | TP |
| 25013 | Dublin | Dublin (probability 99.92%) 2488 | Dublin | 499 | SGSC | Bovine | France | TP |
| 25021 | Gallinarum | Gallinarum Gallinarum 2978 | Gallinarum | 498 | SGSC | Human | Connecticut | TP |
| 25026 | Infantis | Infantis 9381 | Infantis_2 | 500 | SGSC | Human | North Carolina | TN |
| 25030 | Montevideo | Montevideo 6690 | Montevideo_1 | 362 | SGSC | Human | Georgia | TP |
| 25031 | Montevideo | Montevideo 6702 | Montevideo_2 | 361 | SGSC | Human | Florida | TP |
| 25042 | Paratyphi A | Paratyphi A 14413 | Paratyphi A | 498 | SGSC | Unknown | Unknown | TP |
| 25049 | Paratyphi C | Choleraesuis or Paratyphi C 13545 | Paratyphi C | 395 | SGSC | Human | France | TP |
| 25052 | Pullorum | Gallinarum Pullorum 2978.H | Pullorum | 361 | SGSC | Unknown | Germany | TP |
| 25063 | Typhi | Typhi 7241 | Typhi | 267 | SGSC | Unknown | Dakar | TP |
| 25064 | Typhi | Typhi 7241 | Typhi | 267 | SGSC | Unknown | Dakar | TP |
| 26022 | Cerro | Cerro 4237 | Cerro | 361 | EMSFL, ARS, USDA | Fecal (dairy cow) | Unknown | TP |
| 26023 | Cerro | Cerro 4237 | Cerro | 361 | EMSFL, ARS, USDA | Lung (dairy cow) | Unknown | TP |
| 26024 | Cerro | Cerro 4237 | Cerro | 361 | EMSFL, ARS, USDA | Fecal (dairy cow) | Unknown | TP |
| 26028 | Oranienburg | Oranienburg 6717 r | Oranienburg | 365 | EMSFL, ARS, USDA | Fecal (dairy cow) | Unknown | TP |
| 26029 | Oranienburg | Oranienburg 6717 | Oranienburg | 365 | EMSFL, ARS, USDA | Fecal (dairy cow) | Unknown | TP |
| 26030 | Typhimurium 5- | Typhimurium 10909 | Typhimurium | 498 | EMSFL, ARS, USDA | Fecal (dairy cow) | Unknown | TP |
| 26039 | Montevideo | Montevideo 6702 | Montevideo_3 | 362 | EMSFL, ARS, USDA | Milk | Unknown | TN |
| 26050 | Agona | Agona 7205 | Agona | 498 | EMSFL, ARS, USDA | Fecal (dairy cow) | Unknown | TP |
| 26080 | Agona | Agona 7205 | Agona | 498 | EMSFL, ARS, USDA | Fecal (dairy cow) | Unknown | TP |
| 29047 | Typhimurium | Typhimurium 10909 | Typhimurium | 498 | ESQRU, ARS, USDA | Unknown | Unknown | TP |
| 29054 | Typhimurium | Typhimurium 10909 | Typhimurium | 498 | ESQRU, ARS, USDA | Unknown | Unknown | TP |
| 29056 | Typhimurium | Typhimurium 10909 | Typhimurium | 498 | ESQRU, ARS, USDA | Unknown | Unknown | TP |
| 29096 | Schwarzengrund | Schwarzen. or Grumpensis 14909.B | Schwarzengrund | 257 | PPSPR, ARS, USDA | Scalder tank water | Georgia | TP |
| 99113 | Pullorum | Gallinarum Pullorum 2978.H | Pullorum | 361 | CFIA | Chicken House | Unknown | TP |
| 99117 | Gallinarum | Gallinarum Gallinarum 2978 | Gallinarum | 498 | CFIA | Chicken House | Unknown | TP |
| 99163 | Typhimurium 5- | Typhimurium 10909 | Typhimurium | 498 | USDA, ARS, TX | Pigeon | Unknown | TP |
| 99164 | Typhimurium 5- | Typhimurium 10909 | Typhimurium | 498 | ESQRU, ARS, USDA | Unknown | Unknown | TP |
| 99172 | Typhimurium 5- | Typhimurium 10909 | Typhimurium | 498 | USDA, ARS | Pigeon | Unknown | TP |
| 100304.05 | Kentucky | Kentucky 10299 | Kentucky | 492 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.07 | Kentucky | Kentucky 10299 | Kentucky | 492 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.08 | Kentucky | Kentucky 10299 | Kentucky | 492 | PPSPR, ARS, USDA | Scalder tank foam | Georgia | TP |
| 100304.19 | 1,4,[5],12:i:- | 1,4,[5],12:i:- 2717 | 1,4,[5],12:i:- | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.32 | Typhimurium 5- | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.43 | Heidelberg | Heidelberg 15835 | Heidelberg | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.48 | Heidelberg | Heidelberg 15835 | Heidelberg | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.52 | Heidelberg | Heidelberg 15835 | Heidelberg | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.57 | Typhimurium 5- | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.63 | Typhimurium 5- | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.69 | Thompson | Thompson 14415 | Thompson | 259 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.74 | Senftenberg | Senftenberg 2156 | Senftenberg | 362 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.75 | Senftenberg | Schwarzen. or Grumpensis 14909.B | Schwarzengrund | 257 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.76 | Senftenberg | Schwarzen. or Grumpensis 14909.B | Schwarzengrund | 257 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.78 | Thompson | Thompson 14415 | Thompson | 259 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.79 | Thompson | Thompson 14415 | Thompson | 259 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100616.101 | Kentucky | Kentucky 10299 | Kentucky | 492 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100616.87 | 1,4,[5],12:i:- | 1,4,[5],12:i:- 2717 | 1,4,[5],12:i:- | 498 | PPSPR, ARS, USDA | Scalder tank foam | Georgia | TP |
| 100616.89 | Typhimurium | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100616.9 | Typhimurium 5- | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100616.91 | Typhimurium | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100709.01 | Kentucky | Kentucky 10299 | Kentucky | 492 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100709.02 | Kentucky | Kentucky 10299 | Kentucky | 492 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100709.03 | Kentucky | Kentucky 10299 | Kentucky | 492 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100709.04 | Kentucky | Kentucky 10299 | Kentucky | 492 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100709.05 | Senftenberg | Senftenberg 2156 | Senftenberg | 362 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100709.09 | Heidelberg | Heidelberg 15835 | Heidelberg | 498 | PPSPR, ARS, USDA | Scalder tank foam | Georgia | TP |
| 100721.01-2 | 1,4,[5],12:i:- | 1,4,[5],12:i:- 2717 | 1,4,[5],12:i:- | 498 | PPSPR, ARS, USDA | Scalder tank water | Georgia | TP |
| 100721.02 | Infantis | Infantis 9381 | Infantis_1 | 500 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100721.05 | Typhimurium | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100723.09 | Enteritidis | Enteritidis 2994.G | Enteritidis | 499 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.10 | 1,4,[5],12:i:- | 1,4,[5],12:i:- 2717 | 1,4,[5],12:i:- | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100304.50 | Heidelberg | Heidelberg 15835 | Heidelberg | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100709.10 | Thompson | Thompson 14415 | Thompson | 259 | PPSPR, ARS, USDA | Scalder dip tank foam | Georgia | TP |
| 100723.10 | Enteritidis | Enteritidis 2994.G | Enteritidis | 499 | PPSPR, ARS, USDA | Scalder dip tank foam | Georgia | TP |
| 100304.58-2 | Kentucky | Kentucky 10299 | Kentucky | 492 | PPSPR, ARS, USDA | Scalder tank foam | Georgia | TP |
| 100304.62-2 | Typhimurium 5- | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Scalder dip tank foam | Georgia | TP |
| 100616.86-2 | Typhimurium | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100723.01-2 | Kentucky | Kentucky 10299 | Kentucky | 492 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100723.14-2 | Schwarzengrund | Schwarzen. or Grumpensis 14909.B | Schwarzengrund | 257 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100723.02-2 | Heidelberg | Heidelberg 15835 | Heidelberg | 498 | PPSPR, ARS, USDA | Scalder tank foam | Georgia | TP |
| 25010 | Derby | Derby 50 | Derby | 498 | SGSC | Swine | Minnesota | TP |
| 25032 | Muenchen | Muenchen 11942 | Muenchen | 404 | SGSC | Unknown | Unknown | TP |
| 25039 | Panama | Panama 14909 | Panama | 362 | SGSC | Unknown | Italy | TP |
| 26063 | Mbandaka | Mbandaka 11813.C | Mbandaka | 499 | EMSFL, ARS, USDA | Fecal (dairy cow) | Unknown | TP |
| 26066 | Mbandaka | Mbandaka 11813.C | Mbandaka | 499 | EMSFL, ARS, USDA | Fecal (dairy cow) | Unknown | TP |
| 100616.100 | Rough | Infantis 9381 | Infantis_1 | 500 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100616.102 | Rough | Enteritidis 2866.G | Enteritidis | 499 | PPSPR, ARS, USDA | Scalder tank water | Georgia | TP |
| 100616.84 | Rough | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100616.97 | Rough | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100616.99 | Rough | Typhimurium 10909 | Typhimurium | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100709.06 | Rough | Senftenberg 2156 | Senftenberg | 362 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100709.07 | Rough | 1,4,[5],12:i:- 2717 | 1,4,[5],12:i:- | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100709.12 | Rough | Infantis 9381 | Infantis_1 | 500 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100723.04 | Rough | Kentucky 10299 | Kentucky | 492 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100723.08 | Auto agglutinator | Heidelberg 15835 | Heidelberg | 498 | PPSPR, ARS, USDA | Scalder tank foam | Georgia | TP |
| 100723.12 | Rough | Senftenberg 2156 r | Senftenberg | 362 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100723.15 | Rough | Schwarzen. or Grumpensis 14909.B | Schwarzengrund | 257 | PPSPR, ARS, USDA | Scalder tank water | Georgia | TP |
| 25046 | Salmonella (B) | Abony 5325 | Abony | 498 | SGSC | Water | United Kingdom | TP |
| 25050 | Salmonella (C1) | Oranienburg 6717 r | Oranienburg | 361 | SGSC | Human | France | TP |
| 29063 | Salmonella (C1) | Newport 13444 | Newport_1 | 499 | ESQRU, ARS, USDA | Unknown | Unknown | TP |
| 29065 | Salmonella (C1) | Oranienburg 6717 r | Oranienburg | 365 | ESQRU, ARS, USDA | Unknown | Unknown | TP |
| 29066 | Salmonella (B) | Typhimurium 10909 | Typhimurium | 498 | ESQRU, ARS, USDA | Unknown | Unknown | TP |
| 29067 | Salmonella (D) | Enteritidis 2994.G | Enteritidis | 499 | ESQRU, ARS, USDA | Unknown | Unknown | TP |
| 25004 | No O or H antigen | Anatum 15087 | Anatum | 499 | SGSC | Swine | Minnesota | TP |
| 25037 | Newport | Newport 13519 | Newport_2 | 395 | SGSC | Human | Mexico | TP |
| 25038 | Newport | Newport 14539 | Newport_3 | 498 | SGSC | Snake | Massachusetts | TP |
| 101116-10* | Fresno (D2) | Genovar 5216 | UN0019 (D1) | 258 | Breeder farm | Chickens | Alabama or Tennessee | TP |
| 101116-12* | Fresno (D2) | Genovar 5216 | UN0019 (D1) | 258 | Breeder farm | Chickens | Alabama or Tennessee | TP |
| 25005 | Choleraesuis | Genovar 14861 | UN0009 (C1) | 361 | SGSC | Unknown | Switzerland | TP |
| 25007 | Choleraesuis | Genovar 11439 N | UN0010 (C1) | 498 | SGSC | Unknown | Australia | TP |
| 25017 | Enteritidis | Genovar 6660 | UN0002 (D1) | 360 | SGSC | Unknown | Brazil | TP |
| 25019* | Enteritidis | Genovar 2370 | UN0003 (-) | 498 | SGSC | Unknown | Switzerland | TP |
| 25009 | Derby | Genovar 6176 | UN0022 (B) | 498 | SGSC | Avian | Oklahoma | TP |
| 25014 | Dublin | Genovar 5324 | UN0012 (D1) | 498 | SGSC | Unknown | Thailand | TP |
| 25027 | Infantis | Genovar 14892 | UN0023 (C1) | 499 | SGSC | Unknown | Senegal | TP |
| 25034 | Muenchen | Genovar 13646 | UN0036 (C2C3) | 258 | SGSC | Human | France | TP |
| 99167 | Typhimurium 5- | Typhimurium 10909 | Typhimurium 5- | 395 | USDA, ARS | Pigeon | Unknown | TN |
| 99168 | Typhimurium 5- | Typhimurium 10909 | Typhimurium 5- | 395 | USDA, ARS | Pigeon | Unknown | TN |
| (b) Submissions with agreement between DNAhyb and ISR, but disagreeing with serotype as reported using the KW scheme [13] | ||||||||
| 25040 | Panama (D1) | Javiana 12917 | Javiana (D1) | 367 | SGSC | Human | North Carolina | TP |
| 25041 | Panama (D1) | Javiana 12917 | Javiana (D1) | 367 | SGSC | Human | North Carolina | TP |
| 25035 | Muenchen (C2) | Manhattan 11706 | Manhattan (C2) | 396 | SGSC | Human | North Carolina | TP |
| 25051-1†‡ | Pullorum (D1) | Oranienburg 6717 r | Oranienburg (-) | 361 | SGSC | Unknown | Unknown | TP |
| 26026 | Mbandaka (C1) | Tennessee 2108 | Tennessee (C1) | 258 | EMSFL, ARS, USDA | Fecal (dairy cow) | Unknown | TP |
| 100304.58-1†‡ | Kentucky (C2C3) | Typhimurium 10909 | Typhimurium (B) | 498 | PPSPR, ARS, USDA | Scalder tank foam | Georgia | TP |
| 100304.62-1†‡ | Typhimurium 5- (B) | Schwarzen. or Grumpensis 14909.B | Schwarzengrund (B) | 257 | PPSPR, ARS, USDA | Scalder dip tank foam | Georgia | TP |
| 100616.86-1†‡ | Typhimurium (B) | Infantis 9381 | Infantis_1 (C1) | 500 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100616.98-1† | Typhimurium 5- (B) | Kentucky 10299 | Kentucky (C2C3) | 492 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TP |
| 100721.01-1†‡ | 1,4,[5],12:i:- (B) | Kentucky 10299 | Kentucky (C2C3) | 492 | PPSPR, ARS, USDA | Scalder tank water | Georgia | TP |
| 100304.53 | Senftenberg (B) | Typhimurium 10909 | Typhimurium (B) | 498 | PPSPR, ARS, USDA | Scalder tank water | Georgia | TP |
| 25011* | Derby (B) | Genovar 5160 | UN0025 (C2C3) | 498 | SGSC | Turkey | Pennsylvania | TP |
| 25048* | Paratyphi C (C1) | Genovar 14375 | UN0024 (B) | 499 | SGSC | Unknown | France | TP |
| (c) Submissions with disagreement between DNAhyb and ISR, but with DNAhyb in agreement with serotype as reported by the KW scheme [11] | ||||||||
| 25036 | Newport | Newport 13444 | UN0034 | 498 | SGSC | Human | North Carolina | FP |
| 25043-2 | Paratyphi B (B) | Paratyphi B (possibly Java) 13383 | UN0015 | 498 | SGSC | Unknown | Unknown | FP |
| 25044 | Paratyphi B (B) | Paratyphi B (possibly Java) 13383 | UN0011 | 499 | SGSC | Food | Middle East | FP |
| 25051-2 | Pullorum (D1) | Gallinarum Pullorum 2978.H | UN0008 | 530 | SGSC | Unknown | Unknown | FP |
| 25057 | Schwarzengrund | Schwarzen. or Grumpensis 14909.B | UN0006 | 365 | SGSC | Unknown | Scotland | FP |
| 26078 | Kentucky | Kentucky (10791) 6 | UN0028 | 499 | EMSFL, ARS, USDA | Fecal (dairy cow) | Unknown | FP |
| 101116-14 | Javiana | Javiana 12917 | UN0007 | 361 | Breeder farm | Chickens | Alabama or Tennessee | FP |
| 25043-1†‡ | Paratyphi B (B) | Paratyphi B (possibly Java) 13383 | Javiana (D1) | 367 | SGSC | Unknown | Unknown | TN |
| 100723.01-1†‡ | Heidelberg (B) | Heidelberg 15835 | Kentucky (C2C3) | 498 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TN |
| 100723.02-1†‡ | Heidelberg (B) | Heidelberg 15835 | Kentucky (C2C3) | 492 | PPSPR, ARS, USDA | Scalder tank foam | Georgia | TN |
| 100723.14-1†‡ | Kentucky (C2C3) | Kentucky 10299 | Schwarzengrund (B) | 492 | PPSPR, ARS, USDA | Carcass rinse | Georgia | TN |
*
O-antigen immunoreactivity group of KW scheme did not match ISR results, but O-antigens D1 and D2 are cross-reactive.
†
Submissions with hyphenation with numerical extension (-1) were classified as potentially containing a mixture of at least two serotypes as evidenced by forward/reverse ISR sequences that did not match when first evaluated. If a second serotype was isolated, it has extension -2 and is listed elsewhere in the table.
‡
Mixtures of serotypes were confirmed by processing at least 10 CFU.