Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Vascular surgery
Patient Sex F
Patient Age 84
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 1 S S
IMI 1 S S
IMI-RELE 1 S S
ERT 2 R R
FOSFO >256 R R
GENTA ≤0.25 S S
TOBRA 8 I R
AMK 4 S S
CIP >128 R R
COLIS <0.06 WT S
AI2665_v1
AI2665_v1

Sample 238 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
AI2665_v1_c1 238 15 Browse 34 4947 5413871 1.00
Klebsiella pneumoniae
57.27 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.21089700 1583
AI2665_v1_c2 238 15 Browse 7 187 170150 1.45
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
AI2665_v1_c3 238 15 Browse 26 171 158474 1.16
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 0.01369910 770
AI2665_v1_c4 238 15 Browse 1 85 65015 1.50
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 0.00053260 681
AI2665_v1_c5 238 15 Browse 0 2 2058 23.94
Klebsiella pneumoniae
56.51 Non-mobilizable ColRNAI_rep_cluster_1993 000024__JX133088 - - - - - - KU302803 0.00053260 78
AI2665_v1_c6 238 15 Browse 0 2 1552 17.60
Escherichia coli
51.87 Mobilizable ColRNAI_rep_cluster_1885 000013__DQ995351_00001 - - - - MOB_unknown CP018359 JN253636 0.05311790 414