Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Primary care
Patient Sex M
Patient Age 86
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 15:gapA(1), infB(1), mdh(1), pgi(1), phoE(1), rpoB(1), tonB(1)
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 0.5 S S
CEF >128 R R
AZT >128 R R
MEM 0.5 S S
IMI 1 S S
IMI-RELE 0.5 S S
ERT 2 R R
FOSFO 128 I R
GENTA ≤0.25 S S
TOBRA 8 I R
AMK 2 S S
CIP >128 R R
COLIS <0.06 WT S
AI2669_v1
AI2669_v1

Sample 245 was assembled with Unicycler_v0.4.6 into 6 scaffolds, 6 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
AI2669_v1_c1 245 15 Browse 34 5007 5467570 1.00
Klebsiella pneumoniae
57.21 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.21089700 1583
AI2669_v1_c2 245 15 Browse 7 189 171349 1.41
Klebsiella pneumoniae
53.40 Conjugative IncFII, IncR 000113__CP022035, 000204__CP008701_00115, 000128__CP023916 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_014312_00141, NC_019165_00034, NC_021654_00016, NC_022609_00081, NC_014312_00128, NC_019389_00068, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019389_00080 - - CP020903 0.01747610 770
AI2669_v1_c3 245 15 Browse 26 172 158485 1.14
Klebsiella quasipneumoniae
51.33 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_022609_00081, NC_014312_00128, NC_019389_00068, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019389_00080, NC_019155_00032 - - CP010390 0.01374880 770
AI2669_v1_c4 245 15 Browse 1 85 65015 1.98
Klebsiella pneumoniae
51.11 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 0.00055724 681
AI2669_v1_c5 245 15 Browse 0 2 2058 24.45
Escherichia coli
56.51 Non-mobilizable ColRNAI_rep_cluster_1993 000024__JX133088 - - - - - - KU302803 0.00045892 78
AI2669_v1_c6 245 15 Browse 0 2 1552 21.49
Escherichia coli
51.87 Mobilizable ColRNAI_rep_cluster_1885 000013__DQ995351_00001 - - - - MOB_unknown CP018359 JN253636 0.05311790 414