Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario La Paz (Madrid)
Hospital Admission Unit Nephrology
Patient Sex F
Patient Age 67
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Citrobacter freundii
Carbapenamase type(s) KPC-2, IMP-22
MLST 8:aspC(5), clpX(5), fadD(7), mdh(6), arcA(5), dnaG(5), lysP(5)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper >256 R R
P/T 256 R R
CTX >128 R R
CAZ >128 R R
CAZ-AVI 128 R R
CEF 64 R R
AZT 32 R R
MEM 16 R R
IMI 4 R I
IMI-RELE 1 S S
ERT 16 R R
FOSFO <32 S S
GENTA 64 R R
TOBRA 32 R R
AMK 4 S S
CIP 16 R R
COLIS 0.12 WT S
AI2642_v1
AI2642_v1

Sample 127 was assembled with Unicycler_v0.4.6 into 4 scaffolds, 4 of which are closed circles. More details can be found in the table below. Raw data such as the assembly FASTA and annotation files can be downloaded from the "Raw Data" box. The assembly can be browsed by clicking on the "Browse" link for each scaffold.

Scaffold Sample ST Jbrowse Resistance Genes All Genes Scaffold length Circular Est. Copy Number Species GC content Mobility Replicon type Replicon type accession Relaxase type Relaxase type accession MPF type Mpf type accession OriT type OriT accession MASH nearest neighbor MASH neighbor distance MASH neighbor cluster
AI2642_v1_c1 127 8 Browse 38 4959 5142846 1.00
Citrobacter freundii
51.57 Non-mobilizable rep_cluster_1527 000882__CP012005_00092 - - - - - - CP006657 0.20360400 767
AI2642_v1_c2 127 8 Browse 2 215 197744 2.38
Citrobacter freundii
53.09 Conjugative IncFII, IncFIB 000111__NZ_CP011595_00114, 000101__NZ_CP012345_00042, 000123__CP000858 MOBF NC_019125_00139 MPF_F NC_021817_00020, NC_021871_00015, NC_019125_00135, NC_021817_00013 MOBP NZ_CP016040 CP011610 0.01849650 748
AI2642_v1_c3 127 8 Browse 2 50 40203 16.71
Aeromonas hydrophila
57.88 Mobilizable IncP, IncU 000172__KU578314_00001, 000210__KF623109_00045 MOBP NC_003124_00014 - - - - KU578314 0.00121124 891
AI2642_v1_c4 127 8 Browse 7 46 37891 12.76
Enterobacter kobei
53.79 Mobilizable IncN 000155__CP018649 - - MPF_T NC_022375_00024 MOBF NZ_CP016498 CP018442 0.02813470 933