Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Clínic (Barcelona)
Hospital Admission Unit Outpatient
Patient Sex F
Patient Age 69
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 198:gapA(25), infB(33), mdh(1), pgi(26), phoE(7), rpoB(1), tonB(56)
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 ≤0.25 S S
CEF >128 R R
AZT >128 R R
MEM 0.5 S S
IMI 1 S S
IMI-RELE 0.25 S S
ERT 8 R R
FOSFO <32 S S
GENTA ≤0.25 S S
TOBRA ≤0.25 S S
AMK 2 S S
CIP 64 R R
COLIS 0.12 WT S
AI2844_v1
AI2844_v1

Sample 93 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
AI2844_v1_c1 93 198 Browse 25 4750 5126715 1.00
Klebsiella pneumoniae
57.65 Non-mobilizable - - - - - - - - CP007734 0.23011000 1586
AI2844_v1_c2 93 198 Browse 20 215 217450 0.89
Klebsiella oxytoca
51.83 Conjugative IncFII, IncFIB 000107__CP014778_00094, 000127__CP009275 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_014312_00141, NC_019165_00034, NC_021654_00016, NC_011281_00082, NC_022609_00081, NC_014312_00128, NC_019389_00068, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131 - - CP015132 0.01561600 768
AI2844_v1_c3 93 198 Browse 5 67 65914 1.17
Klebsiella pneumoniae
53.84 Non-mobilizable IncR 000204__CP008701_00115 - - - - - - CP007735 0.03198970 771
AI2844_v1_c4 93 198 Browse 1 83 63589 1.74
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