Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Arquitecto Marcide (Ferrol)
Hospital Admission Unit Internal medicine
Patient Sex F
Patient Age 84
Community/Hospital/LTCF acquisition Hospital
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 128 R R
CTX 64 R R
CAZ 16 R R
CAZ-AVI ≤0.12 S S
CEF 32 R R
AZT 16 R R
MEM 1 S S
IMI 1 S S
IMI-RELE 0.5 S S
ERT 8 R R
FOSFO <32 S S
GENTA 16 R R
TOBRA 16 R R
AMK 8 S S
CIP 64 R R
COLIS <0.06 WT S
AN2361_v1
AN2361_v1

Sample 496 was assembled with Unicycler_v0.4.6 into 5 scaffolds, 5 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
AN2361_v1_c1 496 15 Browse 33 4886 5340831 1.00
Klebsiella pneumoniae
57.42 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.21089700 1583
AN2361_v1_c2 496 15 Browse 16 199 202776 0.98
Klebsiella pneumoniae
52.83 Conjugative IncFII, IncFIB 000107__CP014778_00094, 000113__CP022035, 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 - - CP021710 0.01014590 767
AN2361_v1_c3 496 15 Browse 1 87 67159 2.87
Klebsiella pneumoniae
50.97 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 - - KX523901 0.00191916 681
AN2361_v1_c4 496 15 Browse 17 71 63755 1.34
Klebsiella pneumoniae
51.87 Non-mobilizable IncR, rep_cluster_1418 000204__CP008701_00115, 000759__NC_013950_00034 - - - - - - CP021953 0.00985499 728
AN2361_v1_c5 496 15 Browse 0 11 11955 25.15
Klebsiella pneumoniae
55.63 Mobilizable ColRNAI_rep_cluster_1857 000003__NC_002119_00001 MOBC NC_009793_00003 - - - - CP006658 0.00249129 765