Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Surgery
Patient Sex F
Patient Age 53
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 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 128 R R
CTX 128 R R
CAZ 64 R R
CAZ-AVI 0.5 S S
CEF 32 R R
AZT 64 R R
MEM 1 S S
IMI 0.5 S S
IMI-RELE 0.5 S S
ERT 4 R R
FOSFO 64 S R
GENTA 128 R R
TOBRA 32 R R
AMK 8 S S
CIP >128 R R
COLIS 0.12 WT S
AI2681_v1
AI2681_v1

Sample 261 was assembled with Unicycler_v0.4.6 into 7 scaffolds, 7 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
AI2681_v1_c1 261 326 Browse 32 5019 5445481 1.00
Klebsiella pneumoniae
57.21 Non-mobilizable - - - - - - - - CP006642 0.21953100 991
AI2681_v1_c2 261 326 Browse 20 187 182079 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 0.00676872 767
AI2681_v1_c3 261 326 Browse 1 83 63570 2.76
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
AI2681_v1_c4 261 326 Browse 10 65 56855 1.61
Klebsiella pneumoniae
50.87 Non-mobilizable IncR, IncFIA, rep_cluster_1418 000204__CP008701_00115, 000093__KX023259_00112, 000759__NC_013950_00034 - - - - - - CP018737 0.01588820 726
AI2681_v1_c5 261 326 Browse 0 10 9294 8.65
Klebsiella pneumoniae
55.15 Mobilizable ColRNAI_rep_cluster_1857 000003__NC_002119_00001 MOBC NC_009793_00003 - - - - MF150124 0.00004769 762
AI2681_v1_c6 261 326 Browse 0 6 5379 15.14
Klebsiella pneumoniae
45.88 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP018359 0.08074790 201
AI2681_v1_c7 261 326 Browse 0 4 4867 13.49
Citrobacter freundii
53.11 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_013090_00004 - - MOBP CP018941 CP017582 0.04717380 146