Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Gregorio Marañón (Madrid)
Hospital Admission Unit Gastroenterology
Patient Sex M
Patient Age 81
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
MLST 112:aspC(26), clpX(5), fadD(17), mdh(15), arcA(40), dnaG(9), lysP(17)
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 1 S S
CEF 32 R R
AZT 128 R R
MEM 16 R R
IMI 4 R I
IMI-RELE ≤0.25 S S
ERT 4 R R
FOSFO <32 S S
GENTA 1 S S
TOBRA 8 I R
AMK 4 S S
CIP 32 R R
COLIS 0.25 WT S
AI2602_v1
AI2602_v1

Sample 27 was assembled with Unicycler_v0.4.6 into 3 scaffolds, 3 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
AI2602_v1_c1 27 112 Browse 32 4786 5066607 1.00
Citrobacter freundii
51.84 Non-mobilizable - - - - - - - - CP007734 0.26302200 1586
AI2602_v1_c2 27 112 Browse 12 96 92189 1.37
Citrobacter portucalensis
54.01 Conjugative IncFIB 000107__CP014778_00094 MOBC NC_014725_00039 MPF_T NC_011092_00100, NC_011092_00102, NC_011092_00103 - - HQ332785 0.01027180 991
AI2602_v1_c3 27 112 Browse 1 48 38483 5.00
Aeromonas hydrophila
58.48 Mobilizable IncP, IncU 000172__KU578314_00001, 000210__KF623109_00045 MOBP NC_003124_00014 - - - - KU578314 0.00075568 891