Table 1.
The metadata of 75 A. butzleri strains used in this study.
| WGS | Strain | BioProject | Isolation source | Year of isolation | Geographic location | Farm | Sample No. | References |
|---|---|---|---|---|---|---|---|---|
| SRR12709624 | 16CS0847-3 | PRJNA665330 | Fecal sample (goose) | 2016 | Germany | A | 1 | This study |
| SRR12709623 | 17CS0824 | PRJNA665330 | Fecal sample (goose) | 2017 | Germany | A | 2 | This study |
| SRR12709612 | 17CS1193-1 | PRJNA665330 | Fecal sample (mulard duck) | 2017 | Germany | A | 3 | This study |
| SRR12709601 | 17CS1193-2 | PRJNA665330 | Fecal sample (mulard duck) | 2017 | Germany | A | 3 | This study |
| SRR12709635 | 17CS1193-3 | PRJNA665330 | Fecal sample (mulard duck) | 2017 | Germany | A | 3 | This study |
| SRR12709629 | 17CS1197 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | A | 4 | This study |
| SRR12709628 | 17CS1197-2 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | A | 4 | This study |
| SRR12709627 | 17CS1197-3 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | A | 4 | This study |
| SRR12709626 | 17CS1198-1 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | A | 5 | This study |
| SRR12709625 | 17CS1198-2 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | A | 5 | This study |
| SRR12709622 | 17CS1198-3 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | A | 5 | This study |
| SRR12709621 | 16CS0367-AR | PRJNA665330 | Fecal sample (goose) | 2016 | Germany | B | 6 | This study |
| SRR12709620 | 16CS0367-1-AR | PRJNA665330 | Fecal sample (goose) | 2016 | Germany | B | 6 | This study |
| SRR12709619 | 16CS0370-1 | PRJNA665330 | Fecal sample (goose) | 2016 | Germany | B | 7 | This study |
| SRR12709618 | 16CS0375-1 | PRJNA665330 | Fecal sample (goose) | 2016 | Germany | B | 8 | This study |
| SRR12709617 | 16CS0375-2 | PRJNA665330 | Fecal sample (goose) | 2016 | Germany | B | 8 | This study |
| SRR12709616 | 16CS0831-1-1 | PRJNA665330 | Fecal sample (goose) | 2016 | Germany | B | 9 | This study |
| SRR12709615 | 16CS0831-4-1 | PRJNA665330 | Fecal sample (goose) | 2016 | Germany | B | 9 | This study |
| SRR12709614 | 17CS1200-1 | PRJNA665330 | Fecal sample (Pekin duck) | 2017 | Germany | B | 10 | This study |
| SRR12709613 | 17CS1201 | PRJNA665330 | Fecal sample (Pekin duck) | 2017 | Germany | B | 11 | This study |
| SRR12709611 | 17CS1205-1 | PRJNA665330 | Fecal sample (Pekin duck) | 2017 | Germany | B | 12 | This study |
| SRR12709610 | 17CS1205-2 | PRJNA665330 | Fecal sample (Pekin duck) | 2017 | Germany | B | 12 | This study |
| SRR12709609 | 17CS1206-1 | PRJNA665330 | Fecal sample (Pekin duck) | 2017 | Germany | B | 13 | This study |
| SRR12709608 | 17CS1208-3 | PRJNA665330 | Fecal sample (Pekin duck) | 2017 | Germany | B | 14 | This study |
| SRR12709607 | 17CS1167 | PRJNA665330 | Fecal sample (goose) | 2017 | Germany | C | 15 | This study |
| SRR12709606 | 17CS1168 | PRJNA665330 | Fecal sample (goose) | 2017 | Germany | C | 16 | This study |
| SRR12709605 | 17CS1056 | PRJNA665330 | Fecal sample (goose) | 2017 | Germany | D | 17 | This study |
| SRR12709604 | 17CS1066 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | D | 18 | This study |
| SRR12709603 | 17CS1067 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | D | 19 | This study |
| SRR12709602 | 17CS1068-1 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | D | 20 | This study |
| SRR12709600 | 17CS1068-2 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | D | 20 | This study |
| SRR12709599 | 17CS0916-1 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | E | 21 | This study |
| SRR12709598 | 17CS0916-2 | PRJNA665330 | Fecal sample (Muscovy duck) | 2017 | Germany | E | 21 | This study |
| SRR12709597 | 16CS0857-1 | PRJNA665330 | Fecal sample (goose) | 2016 | Germany | F | 22 | This study |
| SRR12709596 | 16CS0861-1 | PRJNA665330 | Fecal sample (goose) | 2016 | Germany | F | 23 | This study |
| SRR12709595 | 17CS1092-1 | PRJNA665330 | Fecal sample (goose) | 2017 | Germany | F | 24 | This study |
| SRR12709594 | 17CS1092-2 | PRJNA665330 | Fecal sample (goose) | 2017 | Germany | F | 24 | This study |
| SRR12709593 | 17CS1095 | PRJNA665330 | Fecal sample (goose) | 2017 | Germany | F | 25 | This study |
| SRR12709637 | 16CS0815-2 | PRJNA665330 | Fecal sample (goose) | 2016 | Germany | G | 26 | This study |
| SRR12709636 | 16CS0820-1 | PRJNA665330 | Fecal sample (Muscovy duck) | 2016 | Germany | G | 27 | [1], this study |
| SRR12709634 | 16CS0820-2 | PRJNA665330 | Fecal sample (Muscovy duck) | 2016 | Germany | G | 27 | This study |
| SRR12709633 | 16CS0823-1 | PRJNA665330 | Fecal sample (Muscovy duck) | 2016 | Germany | G | 28 | This study |
| SRR12709632 | 16CS0823-2 | PRJNA665330 | Fecal sample (Muscovy duck) | 2016 | Germany | G | 28 | [1], this study |
| SRR12709631 | 17CS0965-1 | PRJNA665330 | Fecal sample (goose) | 2017 | Germany | G | 29 | This study |
| SRR12709630 | 17CS0965-B | PRJNA665330 | Fecal sample (goose) | 2017 | Germany | G | 29 | This study |
| SRR10215626 | 16CS0817-2 | PRJNA575341 | Fecal sample (Muscovy duck) | 2016 | Germany | G | – | This study |
| SRR10215625 | 16CS0821-2 | PRJNA575341 | Fecal sample (Muscovy duck) | 2016 | Germany | G | – | This study |
| GCF_900187115.1 | NCTC 12481 | PRJEB6403 | Diarrheic stool (human) | 1992 | USA | – | – | NA, [9]#, [10]§ |
| GCF_004283125.1 | 55 | PRJNA489574 | Mussel | 2014 | Italy | – | – | [2] |
| GCF_004283115.1 | 6V | PRJNA489609 | Clams | 2014 | Italy | – | – | [2] |
| GCF_013363865.1 | RMI | PRJNA637480 | Raw milk | 2018 | Germany | – | – | NA |
| GCF_013363855.1 | RMIII | PRJNA637480 | Raw milk | 2018 | Germany | – | – | NA |
| GCF_000215345.2 | 7h1h | PRJNA67167 | Fecal sample (beef) | 2007 | UK | – | – | [3, 6] |
| ERR3523212 | Ab_1426_2003 | PRJEB34441 | Diarrheic stool (human) | 2003 | France | – | – | [4, 6] |
| ERR3523199 | Ab_1711 | PRJEB34441 | Poultry slaughterhouse equipment surface | 2011 | Portugal | – | – | [5, 6] |
| ERR3523202 | Ab_2211 | PRJEB34441 | Slaughterhouse surface | 2011 | Portugal | – | – | [5, 6] |
| ERR3523203 | Ab_2811 | PRJEB34441 | Carcass neck skin (poultry) | 2011 | Portugal | – | – | [5, 6] |
| ERR3523197 | Ab_3711 | PRJEB34441 | Caecum (poultry) | 2011 | Portugal | – | – | [5, 6] |
| ERR3523210 | Ab_4211 | PRJEB34441 | Carcass drippings (poultry) | 2011 | Portugal | – | – | [5, 6] |
| ERR3523201 | Ab_4511 | PRJEB34441 | Carcass drippings (flock) | 2011 | Portugal | – | – | [5, 6] |
| ERR3523204 | Ab_A103 | PRJEB34441 | River water | 2016 | Portugal | – | – | [6] |
| ERR3523214 | Ab_A111 | PRJEB34441 | River water | 2016 | Portugal | – | – | [6] |
| ERR3523198 | Ab_CR1132 | PRJEB34441 | Ready-to-eat vegetables | 2016 | Portugal | – | – | [6, 7] |
| ERR3523196 | Ab_CR1143 | PRJEB34441 | Meat (poultry) | 2016 | Portugal | – | – | [6, 7] |
| ERR3523205 | Ab_CR424 | PRJEB34441 | Meat (poultry) | 2015 | Portugal | – | – | [6, 7] |
| ERR3523200 | Ab_CR461 | PRJEB34441 | Meat (fish) | 2015 | Portugal | – | – | [6, 7] |
| ERR3523213 | Ab_CR502 | PRJEB34441 | Meat (poultry) | 2015 | Portugal | – | – | [6, 7] |
| ERR3523209 | Ab_CR604 | PRJEB34441 | Meat (beef) | 2015 | Portugal | – | – | [6, 7] |
| ERR3523206 | Ab_CR641 | PRJEB34441 | Meat (poultry) | 2015 | Portugal | – | – | [6, 7] |
| ERR3523216 | Ab_CR891 | PRJEB34441 | Meat (poultry) | 2016 | Portugal | – | – | [6, 7] |
| ERR3523215 | Ab_CR892 | PRJEB34441 | Meat (poultry) | 2016 | Portugal | – | – | [6, 7] |
| ERR3523207 | Ab_DQ20dA1 | PRJEB34441 | Milk (goat) | 2015 | Portugal | – | – | [6, 8] |
| ERR3523217 | Ab_DQ31A1 | PRJEB34441 | Milk (sheep) | 2015 | Portugal | – | – | [6, 8] |
| ERR3523211 | Ab_DQ40A1 | PRJEB34441 | Dairy plant equipment surface | 2015 | Portugal | – | – | [6, 8] |
| ERR3523208 | Ab_DQ64A1 | PRJEB34441 | Dairy plant equipment surface | 2015 | Portugal | – | – | [6, 8] |
[1] - Müller et al. (2020a); [2] - Fanelli et al. (2019); [3] - Merga et al. (2013b); [4] - Ferreira et al. (2014); [5] - Ferreira et al. (2013); [6] - Isidro et al. (2020); [7] - Vicente-Martins et al. (2018); [8] - Ferreira et al. (2017); [9] - Miller et al. (2007); [10] - Miller et al. (2009); NA, not available;
#
antimicrobial susceptibility values and result of the urease assay were taken from reference [9];
§
results of the MLST analysis were taken from reference [10].