Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Internal medicine
Patient Sex M
Patient Age 82
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation sputum
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 147:gapA(3), infB(4), mdh(6), pgi(1), phoE(7), rpoB(4), tonB(38)
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 ≤0.25 S S
CEF 16 R R
AZT 128 R R
MEM 0.5 S S
IMI 1 S S
IMI-RELE 0.5 S S
ERT 1 I R
FOSFO <32 S S
GENTA 128 R R
TOBRA 1 S S
AMK 2 S S
CIP 32 R R
COLIS 0.12 WT S
AI2678_v1
AI2678_v1

Sample 258 was assembled with Unicycler_v0.4.6 into 4 scaffolds, 4 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
AI2678_v1_c1 258 147 Browse 30 4925 5345840 1.00
Klebsiella pneumoniae
57.42 Non-mobilizable - - - - - - - - CP007734 0.20360400 1586
AI2678_v1_c2 258 147 Browse 15 157 162553 1.09
Klebsiella pneumoniae
50.43 Non-mobilizable IncFIB, rep_cluster_1150 000107__CP014778_00094, 000430__CP020850 - - - - - - CP021697 0.01545420 1526
AI2678_v1_c3 258 147 Browse 20 144 122800 1.45
Klebsiella pneumoniae
53.03 Non-mobilizable IncR, IncFIA, rep_cluster_1418 000204__CP008701_00115, 000093__KX023259_00112, 000759__NC_013950_00034 - - - - - - CP009116 0.02895610 726
AI2678_v1_c4 258 147 Browse 0 3 4167 12.09
Klebsiella pneumoniae
41.49 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - EU932690 0.00036121 205