Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Lucus Augusti (Lugo)
Hospital Admission Unit Internal medicine
Patient Sex M
Patient Age 89
Community/Hospital/LTCF acquisition Hospital
Biological Sample of Isolation urine
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 0.5 S S
CAZ 0.5 S S
CAZ-AVI 0.25 S S
CEF 0.5 S S
AZT 1 S S
MEM 0.5 S S
IMI 0.5 S S
IMI-RELE 0.25 S S
ERT 8 R R
FOSFO 256 R R
GENTA 0.25 S S
TOBRA 0.5 S S
AMK 2 S S
CIP 64 R R
COLIS <0.06 WT S
AN2356_v1
AN2356_v1

Sample 491 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
AN2356_v1_c1 491 15 Browse 34 4881 5339534 1.00
Klebsiella pneumoniae
57.42 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.21089700 1583
AN2356_v1_c2 491 15 Browse 0 97 103057 0.58
Klebsiella pneumoniae
51.10 Conjugative IncFIB 000107__CP014778_00094 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_014312_00141, NC_019165_00034, NC_021654_00016, NC_022609_00081, NC_014312_00128, NC_019389_00068, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019389_00080 - - CP006800 0.00861543 1584
AN2356_v1_c3 491 15 Browse 1 84 65498 2.20
Klebsiella pneumoniae
51.43 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 - - KX523901 0.00136596 681