Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Anesthesia and Resuscitation
Patient Sex M
Patient Age 82
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation wound
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 326:gapA(1), infB(1), mdh(1), pgi(1), phoE(1), rpoB(1), tonB(64)
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 2 I S
IMI 2 I S
IMI-RELE 1 S S
ERT 8 R R
FOSFO 32 S S
GENTA 128 R R
TOBRA 32 R R
AMK 16 S R
CIP >128 R R
COLIS <0.06 WT S
AI2675_v1
AI2675_v1

Sample 254 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
AI2675_v1_c1 254 326 Browse 32 5023 5448387 1.00
Klebsiella pneumoniae
57.19 Non-mobilizable - - - - - - - - CP006642 0.21953100 991
AI2675_v1_c2 254 326 Browse 20 186 182080 1.08
Klebsiella pneumoniae
52.79 Conjugative IncFII, IncFIB 000107__CP014778_00094, 000113__CP022035, 000132__HG969996 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_019165_00034, NC_021654_00016, NC_022609_00081, NC_014312_00128, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019389_00080, NC_019155_00032, NC_021231_00085 - - CP015386 0.00669844 767
AI2675_v1_c3 254 326 Browse 1 84 63570 2.64
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
AI2675_v1_c4 254 326 Browse 10 61 53249 1.42
Klebsiella pneumoniae
50.52 Non-mobilizable IncR, IncFIA, rep_cluster_1418 000204__CP008701_00115, 000093__KX023259_00112, 000759__NC_013950_00034 - - - - - - CP018737 0.01445620 726
AI2675_v1_c5 254 326 Browse 0 11 9294 8.38
Klebsiella pneumoniae
55.15 Mobilizable ColRNAI_rep_cluster_1857 000003__NC_002119_00001 MOBC NC_009793_00003 - - - - MF150124 0.00000000 762
AI2675_v1_c6 254 326 Browse 0 4 4867 13.17
Citrobacter freundii
53.11 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_013090_00004 - - MOBP CP018941 CP017582 0.04717380 146