Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Puerta del Mar (Cádiz)
Hospital Admission Unit Hematology
Patient Sex F
Patient Age 55
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation blood culture
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 15:gapA(1), infB(1), mdh(1), pgi(1), phoE(1), rpoB(1), tonB(1)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper >256 R R
P/T >256 R R
CTX 4 R R
CAZ 2 S I
CAZ-AVI 1 S S
CEF 1 S S
AZT 1 S S
MEM 0.5 S S
IMI 0.5 S S
IMI-RELE ≤0.25 S S
ERT 4 R R
FOSFO <32 S S
GENTA ≤0.25 S S
TOBRA ≤0.25 S S
AMK 1 S S
CIP 32 R R
COLIS 0.25 WT S
AI2630_v1
AI2630_v1

Sample 71 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
AI2630_v1_c1 71 15 Browse 30 4986 5390649 1.00
Klebsiella pneumoniae
57.33 Non-mobilizable - - - - - - - - CP007734 0.23011000 1586
AI2630_v1_c2 71 15 Browse 36 234 227360 1.10
Klebsiella pneumoniae
53.36 Conjugative IncFII, IncFIB 000107__CP014778_00094, 000113__CP022035, 000132__HG969996 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_019165_00034, NC_021654_00016, NC_022609_00081, NC_014312_00128, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019389_00080, NC_019155_00032, NC_021654_00004 - - CP020838 0.00439372 767
AI2630_v1_c3 71 15 Browse 1 85 64939 1.91
Escherichia coli, Klebsiella pneumoniae
51.23 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 0.00026408 681