Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Nephrology
Patient Sex M
Patient Age 24
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
MLST 171:dnaA(49), fusA(21), gyrB(19), leuS(44), pyrG(45), rplB(12), rpoB(32)
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 0.5 S S
CEF >128 R R
AZT >128 R R
MEM 128 R R
IMI >128 R R
IMI-RELE 128 R R
ERT >128 R R
FOSFO 64 S R
GENTA 128 R R
TOBRA 64 R R
AMK 4 S S
CIP 64 R R
COLIS <0.06 WT S
AI2662_v1
AI2662_v1

Sample 235 was assembled with Unicycler_v0.4.6 into 7 scaffolds, 7 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
AI2662_v1_c1 235 171 Browse 39 4382 4702592 1.00
Enterobacter hormaechei
55.26 Non-mobilizable - - - - - - - - CP008824 0.17817300 966
AI2662_v1_c2 235 171 Browse 8 259 248724 1.14
Citrobacter freundii
45.38 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 EF382672 0.00638544 429
AI2662_v1_c3 235 171 Browse 1 84 63570 2.36
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 0.00000000 681
AI2662_v1_c4 235 171 Browse 0 4 4036 17.16
Klebsiella michiganensis
30.50 Non-mobilizable - - - - - - - - 1.00000000
AI2662_v1_c5 235 171 Browse 0 2 2495 11.95
Enterobacter hormaechei
51.42 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOB_unknown NC_017722 CP010389 0.00123693 215
AI2662_v1_c6 235 171 Browse 0 2 2348 32.49
Mycoplasma canadense
33.18 Non-mobilizable ColRNAI_rep_cluster_1996 000026__AY543071 - - - - - - AY543071 0.02614300 950
AI2662_v1_c7 235 171 Browse 0 1 2317 15.30
Enterobacter hormaechei
49.24 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOBP CP018941 CP018317 0.02008220 58