Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Marqués de Valdecilla (Santander)
Hospital Admission Unit None
Patient Sex F
Patient Age 76
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 5000:gapA(3), infB(3), mdh(113), pgi(1), phoE(1), rpoB(1), tonB(4)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper 256 R R
P/T 128 R R
CTX 16 R R
CAZ 16 R R
CAZ-AVI 1 S S
CEF 8 SDD R
AZT 4 S I
MEM ≤0.12 S S
IMI 0.5 S S
IMI-RELE ≤0.12 S S
ERT 0.12 S S
FOSFO 256 R R
GENTA ≤0.25 S S
TOBRA 8 I R
AMK 0.5 S S
CIP 32 R R
COLIS <0.06 WT S
AI2753_v1
AI2753_v1

Sample 385 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
AI2753_v1_c1 385 5000 Browse 34 5075 5410851 1.00
Klebsiella pneumoniae
57.47 Conjugative IncP 000164__NC_022344_00310 MOBP NC_022344_00316 MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016, NC_022344_00321, NC_022344_00326, NC_022344_00330, NC_015727_00490 - - CP015754 0.20360400 1583
AI2753_v1_c2 385 5000 Browse 33 252 236315 1.23
Klebsiella pneumoniae
52.96 Non-mobilizable IncFII, IncFIB 000107__CP014778_00094, 000113__CP022035, 000132__HG969996 - - MPF_F NC_019165_00034, NC_021654_00016, NC_022609_00081, NC_014312_00128, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019389_00080, NC_019155_00032, NC_021654_00004 - - CP009777 0.00537869 767
AI2753_v1_c3 385 5000 Browse 6 52 48675 1.71
Klebsiella pneumoniae
50.03 Conjugative IncR 000204__CP008701_00115 MOBF, MOBP NC_015599_00019, NC_021576_00050 MPF_T NC_022375_00024 MOBF NZ_CP012928 CP014299 0.02484130 730