Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Primary care
Patient Sex F
Patient Age 94
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 405:gapA(2), infB(1), mdh(62), pgi(3), phoE(10), rpoB(4), tonB(110)
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 128 R R
AZT 128 R R
MEM 1 S S
IMI 2 I S
IMI-RELE 1 S S
ERT 1 I R
FOSFO >256 R R
GENTA 32 R R
TOBRA 16 R R
AMK 1 S S
CIP 8 R R
COLIS <0.06 WT S
AI2670_v1
AI2670_v1

Sample 246 was assembled with Unicycler_v0.4.6 into 5 scaffolds, 5 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
AI2670_v1_c1 246 405 Browse 32 4973 5416465 1.00
Klebsiella pneumoniae
57.25 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP021942 0.21089700 1705
AI2670_v1_c2 246 405 Browse 32 198 194000 1.45
Klebsiella pneumoniae
52.01 Conjugative IncFII, IncFIB 000124__KP125893_00142, 000107__CP014778_00094 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_019165_00034, NC_021654_00016, NC_011281_00082, NC_022609_00081, NC_014312_00128, NC_019389_00068, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019155_00032 - - KY271404 0.00853806 770
AI2670_v1_c3 246 405 Browse 1 83 63570 2.35
Klebsiella pneumoniae
51.22 Conjugative IncL/M 000148__NC_021488_00028 MOBP NC_004464_00056 MPF_I NC_004464_00105, NC_005246_00057, NC_019063_00094, NC_019344_00078, NC_004464_00066, NC_004464_00068, NC_019154_00069, NC_005246_00069, NC_004464_00073 - - CP015075 0.00000000 681
AI2670_v1_c4 246 405 Browse 0 40 49255 3.61
Klebsiella pneumoniae
54.72 Non-mobilizable - - - - - - - - KY271404 0.04424830 770
AI2670_v1_c5 246 405 Browse 0 4 3849 11.63
Burkholderia cepacia
46.45 Non-mobilizable ColRNAI_rep_cluster_1857 000012__CP000801 - - - - - - EU092237 0.12330000 3205