Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Ramón y Cajal (Madrid)
Hospital Admission Unit None
Patient Sex F
Patient Age 92
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 32 R R
CAZ 8 I R
CAZ-AVI ≤0.25 S S
CEF 0.5 S S
AZT 0.5 S S
MEM 1 S S
IMI 2 I S
IMI-RELE 2 I S
ERT 1 I R
FOSFO <32 S S
GENTA ≤0.25 S S
TOBRA ≤0.25 S S
AMK 0.5 S S
CIP 64 R R
COLIS <0.06 WT S
AI2896_v1
AI2896_v1

Sample 170 was assembled with Unicycler_v0.4.6 into 6 scaffolds, 6 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
AI2896_v1_c1 170 307 Browse 31 4903 5349808 1.00
Klebsiella pneumoniae
57.44 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.20360400 1583
AI2896_v1_c2 170 307 Browse 23 206 198434 1.39
Klebsiella pneumoniae
53.43 Conjugative IncFIB 000107__CP014778_00094 MOBF NC_021231_00058 MPF_F NC_021502_00150, 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, NC_019155_00032 - - CP015393 0.01162100 767
AI2896_v1_c3 170 307 Browse 1 83 64005 1.85
Klebsiella pneumoniae
51.31 Conjugative IncL/M 000148__NC_021488_00028 MOBP NC_004464_00056 MPF_I 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 0.00078066 681
AI2896_v1_c4 170 307 Browse 2 57 49511 2.24
Citrobacter sp.
51.06 Conjugative IncN 000155__CP018649 MOBF NC_015599_00019 MPF_T NC_009131_00030, NC_011617_00041, NC_014368_00014, NC_007682_00044, NC_008612_00190, NC_022375_00024 MOBF NZ_CP016498 CP008901 0.00433199 933
AI2896_v1_c5 170 307 Browse 0 4 3991 11.59
Klebsiella pneumoniae
44.35 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP012558 0.08624910 195
AI2896_v1_c6 170 307 Browse 0 6 3357 17.82
Escherichia coli
52.04 Non-mobilizable - - - - - - - - KU302805 0.06426450 3406