Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Gregorio Marañón (Madrid)
Hospital Admission Unit Internal medicine
Patient Sex M
Patient Age 91
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 11:gapA(3), infB(3), mdh(1), 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 >256 R R
CTX >128 R R
CAZ >128 R R
CAZ-AVI 4 S S
CEF 64 R R
AZT 128 R R
MEM 16 R R
IMI 4 R I
IMI-RELE ≤0.25 S S
ERT 2 R R
FOSFO 256 R R
GENTA 64 R R
TOBRA 16 R R
AMK 4 S S
CIP 128 R R
COLIS 4 NWT R
AI2604_v1
AI2604_v1

Sample 31 was assembled with Unicycler_v0.4.6 into 3 scaffolds, 2 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
AI2604_v1_c1 31 11 Browse 34 5058 5377889 1.00
Klebsiella pneumoniae
57.39 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.20360400 1583
AI2604_v1_c2 31 11 Browse 20 151 143831 1.24
Klebsiella pneumoniae
52.30 Conjugative IncFII, IncFIB 000107__CP014778_00094, 000113__CP022035, 000132__HG969996 MOBF NC_021231_00058 MPF_F NC_021502_00150, 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 - - CP020109 0.00399629 769
AI2604_v1_c3 31 11 Browse 17 108 108400 2.84
Klebsiella pneumoniae
54.05 Conjugative IncR 000204__CP008701_00115 MOBF, MOBP NC_015599_00019, NC_021576_00050 MPF_T NC_022375_00024 MOBF NZ_CP012928 CP011990 0.02614300 767