Table 2.
Genome features of the four sequenced Citrobacter species
| Strain | Assembly size (bp) | Contigs | G + C content | N50 | CDS | ANI (%) | PubMLST species ID | ARGs No. | VGs No. | Insertion Sequence | Trans-poson | T4CP gene cluster | T4SS secretion system | Plasmid ID and [Type] |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| S21 | 4 987 947 | 144 | 52.12 | 60,775 | 4923 | C. braakii (98.6) * | C. braakii | 25 | 56 |
IS5 IS102 IS5075 |
Tn5403 | - | VirB1, VirB2, VirB3, VirB4, VirB5, VirB6, VirB8, VirB9, VirB10, VirB11, VirD4 | AA885 [rep_1804] |
| S23 | 4 805 424 | 62 | 52.17 | 145,585 | 4602 | C. braakii (98.7) * | C. braakii | 24 | 55 | - | - | Present | - | - |
| S24 | 5 481 339 | 104 | 50.62 | 192,439 | 5492 | C. murliniae (99.26) ** | C. murliniae | 24 | 47 |
ISEsa1 ISEsa2 ISKpn24 ISKpn26 IS5075 ISEc33 |
Tn5403 | Present |
VirD4-TraABCD TraEFGH-TrbABCD TrbEFGH TrbIJKLV% TraX_F-TrbBCDE TrbFGHIJLN%% |
AA543 [IncHI1A, IncP] AA810 [rep_cluster_1368] AC978 [-] AC431 [-] |
| S25 | 5 269 614 | 91 | 51.49 | 154,085 | 5352 | C. portucalensis (98.6) *** | C. portucalensis | 24 | 38 |
ISSpu2 ISEsa1 ISEsa2 IS903 IS5075 ISKox1 |
Tn5403 | Present |
TraABCEFG TraHIKLNVW# |
AB130 [Col(VCM04)] AA423 [-] AF384 [-] AF578 [-] |
*Citrobacter braakii strain DY2019 was used as a reference; ** Citrobacter murliniae strain P080C CL was used as a reference;*** Citrobacter portucalensis A60T was used as a reference; ARG: antibiotic resistance genes, VGs: virulence genes; IS: insertion sequence (isfinder); Tn: transposons (tn_registry), (-) indicates absent; % Type IV secretion system gene cluster determined in plasmid AA543; %% Type IV secretion system gene cluster determined in plasmid AC978; # Type IV secretion system gene cluster determined in plasmids AB130; No. is the number of genes; CDS: coding domain sequences; C: contigs