Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Internal medicine
Patient Sex F
Patient Age 92
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 128 R R
CTX 64 R R
CAZ 128 R R
CAZ-AVI ≤0.25 S S
CEF 16 R R
AZT 128 R R
MEM 0.25 S S
IMI 0.5 S S
IMI-RELE 0.5 S S
ERT 2 R R
FOSFO <32 S S
GENTA 128 R R
TOBRA ≤0.25 S S
AMK 0.5 S S
CIP 16 R R
COLIS <0.06 WT S
AI2682_v1
AI2682_v1

Sample 262 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
AI2682_v1_c1 262 147 Browse 29 4861 5285889 1.00
Klebsiella pneumoniae
57.48 Non-mobilizable - - - - - - - - CP007734 0.21089700 1586
AI2682_v1_c2 262 147 Browse 16 251 252602 2.20
Klebsiella pneumoniae
50.91 Non-mobilizable IncFIB, IncR, IncFIA, rep_cluster_1418, rep_cluster_1150, IncU 000107__CP014778_00094, 000430__CP020850, 000204__CP008701_00115, 000093__KX023259_00112, 000759__NC_013950_00034, 000212__CP012556_00176 - - - - - - CP021697 0.02822470 1526
AI2682_v1_c3 262 147 Browse 0 79 66983 2.87
Klebsiella pneumoniae
54.16 Conjugative IncFII, rep_cluster_959 002443__CP006922_00079, 000129__CP018340 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_022609_00095 - - KF954760 0.04156860 1578
AI2682_v1_c4 262 147 Browse 1 81 63570 2.58
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
AI2682_v1_c5 262 147 Browse 0 3 4167 18.34
Klebsiella pneumoniae
41.49 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - EU932690 0.00036121 205
AI2682_v1_c6 262 147 Browse 0 3 3897 11.77
Klebsiella oxytoca
42.37 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP018739 0.05608620 207