Collection SERGAS
Isolation Year 2017
Isolation Location Complejo Hospitalario Universitario de A Coruña
Hospital Admission Unit ICU
Patient Sex M
Patient Age 45
Community/Hospital/LTCF acquisition LTCF
Biological Sample of Isolation wound
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 405:gapA(2), infB(1), mdh(62), pgi(3), phoE(10), rpoB(4), tonB(110)
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 32 R R
CAZ-AVI 0.5 S S
CEF 128 R R
AZT 128 R R
MEM 64 R R
IMI 64 R R
IMI-RELE 32 R R
ERT 64 R R
FOSFO >256 R R
GENTA 8 I R
TOBRA 16 R R
AMK 2 S S
CIP 4 R R
COLIS <0.06 WT S
AN2343_v1
AN2343_v1

Sample 478 was assembled with Unicycler_v0.4.6 into 4 scaffolds, 4 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
AN2343_v1_c1 478 405 Browse 31 5000 5446955 1.00
Klebsiella pneumoniae
57.27 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP021942 0.21089700 1705
AN2343_v1_c2 478 405 Browse 28 228 236630 1.33
Klebsiella pneumoniae, Klebsiella quasipneumoniae
52.38 Conjugative IncFII, IncFIB 000107__CP014778_00094, 000130__CP023489 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_023905_00125 - - KY271404 0.00423980 770
AN2343_v1_c3 478 405 Browse 1 91 83352 4.02
Klebsiella pneumoniae
53.11 Conjugative IncFII, rep_cluster_1418 000124__KP125893_00142, 000759__NC_013950_00034 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 - - CP014765 0.02813470 1577
AN2343_v1_c4 478 405 Browse 1 84 65498 6.71
Escherichia coli
51.43 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 0.00141786 681