Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Ramón y Cajal (Madrid)
Hospital Admission Unit None
Patient Sex F
Patient Age 82
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 45:gapA(2), infB(1), mdh(1), pgi(6), phoE(7), rpoB(1), tonB(12)
EDTA Assay (if any) Probable Bla negative
PCR Result (if any) OXA-48 positive
Agent MIC CLSI EUCAST
Piper 256 R R
P/T 128 R R
CTX 0.5 S S
CAZ 1 S S
CAZ-AVI ≤0.25 S S
CEF 0.5 S S
AZT 0.25 S S
MEM 0.5 S S
IMI 0.5 S S
IMI-RELE 0.5 S S
ERT 2 R R
FOSFO 256 R R
GENTA 0.5 S S
TOBRA 0.5 S S
AMK 2 S S
CIP 0.5 I ATU
COLIS 0.12 WT S
AI2893_v1
AI2893_v1

Sample 164 was assembled with Unicycler_v0.4.6 into 6 scaffolds, 5 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
AI2893_v1_c1 164 45 Browse 32 4879 5229763 1.00
Klebsiella pneumoniae
57.59 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.20360400 1583
AI2893_v1_c2 164 45 Browse 1 89 96191 1.23
Klebsiella pneumoniae
54.28 Non-mobilizable IncFIB 000107__CP014778_00094 - - MPF_T NC_021502_00150 - - CP015393 0.03347510 767
AI2893_v1_c3 164 45 Browse 1 86 65502 2.06
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 0.00023990 681
AI2893_v1_c4 164 45 Browse 0 53 53770 1.95
Klebsiella oxytoca
52.36 Non-mobilizable rep_cluster_1 000232__CP012429 - - - - - - CP018314 0.01364960 1705
AI2893_v1_c5 164 45 Browse 0 11 9297 9.03
Citrobacter koseri
55.18 Mobilizable ColRNAI_rep_cluster_1857 000003__NC_002119_00001 MOBC NC_009793_00003 - - - - CP022075 0.00040999 762
AI2893_v1_c6 164 45 Browse 0 7 6996 6.49
Proteus mirabilis
44.78 Non-mobilizable - - - - - - - - CP021854 0.06426450 986