Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Univeristario de Bellvitge (Barcelona)
Hospital Admission Unit Nephrology
Patient Sex M
Patient Age 77
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 307:gapA(4), infB(1), mdh(2), pgi(52), phoE(1), rpoB(1), tonB(7)
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 1 S S
CEF >128 R R
AZT >128 R R
MEM 0.25 S S
IMI 0.25 S S
IMI-RELE ≤0.12 S S
ERT 64 R R
FOSFO <32 S S
GENTA 32 R R
TOBRA 4 S R
AMK 1 S S
CIP 128 R R
COLIS <0.06 WT S
AI2773_v2
AI2773_v2

Sample 416 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
AI2773_v2_c1 416 307 Browse 28 4963 5364591 1.00 None 57.44 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI2773_v2_c2 416 307 Browse 11 118 90272 2.82 None 51.51 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 - - KU159086 0.01819170 683
AI2773_v2_c3 416 307 Browse 0 51 53258 3.64 None 52.42 Non-mobilizable rep_cluster_1 000232__CP012429 - - - - - - CP018314 0.01350160 1705
AI2773_v2_c4 416 307 Browse 0 3 4709 17.78 None 43.36 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP018358 0.06371240 204