Table 1 Prevalence of the primary (flag-1) and additional (flag-2 to flag-5) loci among the Enterobacterales. The number and percentage of taxa at the family and genus level that incorporate each type of locus are indicated
Family | Genus | # Strains | flag-1 | flag-2 | flag-3a | flag-3b | flag-4 | flag-5 | # Strains with 3 flag loci | Â |
|---|---|---|---|---|---|---|---|---|---|---|
Budviciaceae | Â | 9 | 0 (0%) | 7 (77.8%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | Â | Â |
Budvicia | 2 | – | 2 (100%) | – | – | – | – |  |  | |
Leminorella | 2 | – | 1 (50%) | – | – | – | – |  |  | |
Limnobaculum | 1 | – | – | – | – | – | – |  |  | |
Pragia | 4 | – | 4 (100%) | – | – | – | – |  |  | |
Enterobacteriaceae | Â | 2464 | 1878 (76.2%) | 317 (12.9%) | 110 (4.5%) | 34 (1.4%) | 0 (0%) | 0 (0%) | 7 (0.3%) | Â |
Atlantibacter | 5 | 5 (100%) | – | – | – | – | – |  |  | |
Buttiauxella | 8 | 8 (100%) | 4 (50%) | – | 1 (12.5%) | – | – | 1 (12.5%) |  | |
Cedecea | 8 | 8 (100%) | 6 (75%) | – | – | – | – |  |  | |
Citrobacter Clade A | 157 | 157 (100%) | 91 (58.0%) | – | – | – | – |  |  | |
Citrobacter Clade B | 21 | 21 (100%) | 5 (23.8%) | – | – | – | – |  |  | |
Citrobacter Clade C | 4 | 4 (100%) | 4 (100%) | – | 4 (100%) | – | – | 4 (100%) |  | |
Citrobacter Clade D | 30 | 30 (100%) | 30 (100%) | – | – | – | – |  |  | |
Cronobacter | 189 | 189 (100%) | – | – | – | – | – |  |  | |
Enterobacter | 608 | 608 (100%) | 30 (4.9%) | 110 (18.1%) | – | – | – | 2 (0.3%) |  | |
Escherichia | 522 | 522 (100%) | 124 (23.8%) | – | – | – | – |  |  | |
Franconibacter | 10 | 10 (100%) | – | – | – | – | – |  |  | |
Klebsiella Clade A | 100 | 100 (100%) | – | – | – | – | – |  |  | |
Klebsiella Clade B | 310 | – | – | – | – | – | – |  |  | |
Klebsiella Clade C | 189 | – | – | – | – | – | – |  |  | |
Kluyvera | 9 | 9 (100%) | 4 (44.4%) | – | – | – | – |  |  | |
Kosakonia | 24 | 24 (100%) | – | – | 15 (62.5%) | – | – |  |  | |
Leclercia | 10 | 10 (100%) | – | – | – | – | – |  |  | |
Lelliottia | 13 | 13 (100%) | 9 (69.2%) | – | – | – | – |  |  | |
Mangrovibacter | 2 | 2 (100%) | 2 (100%) | – | – | – | – |  |  | |
Metakosakonia | 3 | 3 (100%) | 1 (33.3%) | – | – | – | – |  |  | |
Phytobacter | 2 | 2 (100%) | – | – | – | – | – |  |  | |
Pluralibacter | 17 | 17 (100%) | 2 (11.8%) | – | 14 (82.4%) | – | – |  |  | |
Pseudescherichia | 2 | 2 (100%) | 2 (100%) | – | – | – | – |  |  | |
Pseudocitrobacter | 1 | 1 (100%) | 1 (100%) | – | – | – | – |  |  | |
Raoultella | 85 | – | – | – | – | – | – |  |  | |
Salmonella | 112 | 112 (100%) | – | – | – | – | – |  |  | |
Shimwellia | 2 | – | – | – | – | – | – |  |  | |
Siccibacter | 6 | 6 (100%) | 2 (0.33%) | – | – | – | – |  |  | |
Superficieibacter | 2 | 2 (100%) | – | – | – | – | – |  |  | |
Trabulsiella | 8 | 8 (100%) | – | – | – | – | – |  |  | |
Yokenella | 5 | 5 (100%) | – | – | – | – | – |  |  | |
Erwiniaceae | Â | 287 | 279 (97.2%) | 8 (2.8%) | 44 (15.3%) | 12 (4.2%) | 2 (0.7%) | 0 (0%) | Â | Â |
Buchnera | 58 | 58 (100%) | – | – | – | – | – |  |  | |
Erwinia | 63 | 60 (95.2%) | 2 (3.2%) | 41 (65.1%) | 1 (1.6%) | – | – |  |  | |
Izhakiella | 2 | 2 (100%) | 2 (100%) | – | – | – | – |  |  | |
Mixta | 4 | 4 (100%) | – | – | 4 | – | – |  |  | |
Pantoea | 151 | 151 (100%) | 2 (1.3%) | 3 (2%) | 7 (4.6%) | – | – |  |  | |
Phaseolibacter | 1 | – | – | – | – | – | – |  |  | |
Rosenbergiella | 1 | 1 (100%) | 1 (100%) | – | – | – | – |  |  | |
Tatumella | 5 | 3 (60%) | 1 (20%) | – | – | – | – |  |  | |
Wigglesworthia | 2 | – | – | – | – | 2 | – |  |  | |
Hafniaceae | Â | 97 | 97 (100%) | 28 (28.9%) | 0 (0%) | 4 (4.1%) | 0 (0%) | 0 (0%) | 4 (4.1%) | Â |
Edwardsiella | 50 | 50 (100%) | – | – | – | – | – |  |  | |
Enterobacillus | 1 | 1 (100%) | – | – | – | – | – |  |  | |
Hafnia | 42 | 42 (100%) | 24 (57.1%) | – | – | – | – |  |  | |
Obesumbacterium | 4 | 4 (100%) | 4 (100%) | – | 4 | – | – | 4 (100%) |  | |
Morganellaceae | Â | 313 | 311 (99.4%) | 0 (0%) | 0 (0%) | 1 (0.3%) | 0 (0%) | 0 (0%) | Â | Â |
Arsenophonus | 2 | 2 (100%) | – | – | – | – | – |  |  | |
Moellerella | 2 | 2 (100%) | – | – | – | – | – |  |  | |
Morganella | 55 | 55 (100%) | – | – | 1 (1.8%) | – | – |  |  | |
Photorhabdus | 31 | 31 (100%) | – | – | – | – | – |  |  | |
Proteus | 122 | 122 (100%) | – | – | – | – | – |  |  | |
Providencia | 58 | 56 (96.6%) | – | – | – | – | – |  |  | |
Xenorhabdus | 43 | 43 (100%) | – | – | – | – | – |  |  | |
Pectobacteriaceae | Â | 244 | 241 (98.8%) | 0 (0%) | 0 (0%) | 0 (0%) | 4 (1.6%) | 0 (0%) | Â | Â |
Biostraticola | 1 | – | – | – | – | 1 (100%) | – |  |  | |
Brenneria | 9 | 9 (100%) | – | – | – | – | – |  |  | |
Dickeya | 55 | 55 (100%) | – | – | – | – | – |  |  | |
Lonsdalea | 35 | 35 (100%) | – | – | – | – | – |  |  | |
Pectobacterium | 140 | 138 (98.6%) | – | – | – | – | – |  |  | |
Samsonia | 1 | 1 (100%) | – | – | – | – | – |  |  | |
Sodalis | 3 | 3 (100%) | – | – | – | 3 (100%) | – |  |  | |
Thorselliaceae | Â | 1 | 1 (100%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | 0 (0%) | Â | Â |
Thorsellia | 1 | 1 (100%) | – | – | – | – | – |  |  | |
Yersiniaceae | Â | 605 | 593 (97.9%) | 225 (37.2%) | 0 (0%) | 44 (7.3%) | 0 (0%) | 0 (0%) | 8 (1.3%) | Â |
Chania | 2 | 2 (100%) | 1 (50%) | – | – | – | – |  |  | |
Ewingella | 2 | 2 (100%) | – | – | – | – | – |  |  | |
Gibbsiella | 4 | – | – | – | – | – | – |  |  | |
Nissabacter | 1 | 1 (100%) | – | – | – | – | – |  |  | |
Rahnella | 18 | 17 (94.4%) | – | – | 4 (22.2%) | – | – |  |  | |
Rouxiella | 3 | – | 1 (33.3%) | – | – | – | – |  |  | |
Serratia Clade A | 159 | 157 (98.7%) | – | – | – | – | – |  |  | |
Serratia Clade B | 12 | 12 (100%) | – | – | 1 (8.3%) | – | – |  |  | |
Serratia Clade C | 8 | 8 (100%) | – | – | – | – | – |  |  | |
Serratia Clade D | 1 | – | – | – | – | – | – |  |  | |
Serratia Clade E | 1 | – | – | – | – | – | – |  |  | |
Yersinia | 394 | 394 (100%) | 223 (56.6%) | – | 39 (10%) | – | – | 8 (2.0%) |  | |
Family Unassigned | Â | 8 | 0 (0%) | 8 (100%) | 0 (0%) | 0 (0%) | 0 (0%) | 8 (100%) | Â | Â |
Plesiomonas | 8 | – | 8 (100%) | – | – | – | 8 (100%) |  |  | |
OVERALL | Â | 4028 | Â | 3400 (84.4%) | 593 (14.7%) | 154 (3.8%) | 95 (2.4%) | 6 (0.1%) | 8 (0.2%) | 19 (0.5%) |