Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Gregorio Marañón (Madrid)
Hospital Admission Unit Internal medicine
Patient Sex M
Patient Age 73
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation wound
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 2 S S
CEF >128 R R
AZT >128 R R
MEM ≤0.25 S S
IMI ≤0.25 S S
IMI-RELE ≤0.25 S S
ERT 2 R R
FOSFO 64 S R
GENTA 32 R R
TOBRA 8 I R
AMK 2 S S
CIP >128 R R
COLIS 0.25 WT S
AI2590_v1
AI2590_v1

Sample 8 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
AI2590_v1_c1 8 11 Browse 33 5060 5387974 1.00
Klebsiella pneumoniae
57.40 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.20360400 1583
AI2590_v1_c2 8 11 Browse 21 136 122898 3.88
Klebsiella pneumoniae
51.94 Non-mobilizable IncFIB 000107__CP014778_00094 - - MPF_F NC_022609_00081, NC_014312_00128, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_021654_00004 - - LT009688 0.00916565 769
AI2590_v1_c3 8 11 Browse 7 55 51265 1.92
Klebsiella pneumoniae
50.43 Conjugative IncR 000204__CP008701_00115 MOBF, MOBP NC_015599_00019, NC_021576_00050 MPF_T NC_022375_00024 MOBF NZ_CP012928 CP014299 0.02581150 730