Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Vall d'Hebron (Barcelona)
Hospital Admission Unit ICU
Patient Sex F
Patient Age 53
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Enterobacter cloacae complex
Carbapenamase type(s) OXA-48, VIM-1
MLST 1015:dnaA(4), fusA(4), gyrB(68), leuS(6), pyrG(39), rplB(4), rpoB(25)
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 >128 R R
AZT 8 I R
MEM 8 R I
IMI 8 R R
IMI-RELE 4 R R
ERT >128 R R
FOSFO 32 S S
GENTA 16 R R
TOBRA 16 R R
AMK 2 S S
CIP 4 R R
COLIS <0.06 WT S
AI2799_v1
AI2799_v1

Sample 453 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
AI2799_v1_c1 453 1015 Browse 26 4529 4846626 1.00
Enterobacter cloacae
55.52 Non-mobilizable - - - - - - - - CP018670 0.20360400 1582
AI2799_v1_c2 453 1015 Browse 28 315 294974 1.29
Citrobacter freundii
46.85 Conjugative rep_cluster_1088, IncH 000139__NC_012555_00001, 000338__NC_021819 MOBH NC_012555_00231 MPF_F NC_005211_00200, NC_005211_00207, NC_005211_00005, NC_009838_00006, NC_005211_00012, NC_021845_00017, NC_005211_00030 MOBH NC_017484 LN794248 0.00687462 429
AI2799_v1_c3 453 1015 Browse 0 129 111400 1.75
Enterobacter hormaechei
52.24 Non-mobilizable IncFIB 000102__NC_003385_00128 - - - - - - CP010386 0.01683910 86
AI2799_v1_c4 453 1015 Browse 1 84 63589 2.70
Escherichia coli, Klebsiella pneumoniae
51.22 Conjugative IncL/M 000148__NC_021488_00028 MOBP NC_004464_00056 MPF_I NC_004464_00105, NC_005246_00057, NC_019063_00094, NC_019344_00078, NC_004464_00066, NC_004464_00068, NC_019154_00069, NC_005246_00069, NC_004464_00073 - - CP015075 0.00002383 681