Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Gregorio Marañón (Madrid)
Hospital Admission Unit Internal medicine
Patient Sex F
Patient Age 74
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 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 >128 R R
CAZ-AVI 4 S S
CEF >128 R R
AZT >128 R R
MEM 8 R I
IMI 8 R R
IMI-RELE 4 R R
ERT 64 R R
FOSFO 256 R R
GENTA 16 R R
TOBRA 8 I R
AMK 4 S S
CIP 16 R R
COLIS 0.5 WT S
AI2600_v1
AI2600_v1

Sample 22 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
AI2600_v1_c1 22 405 Browse 34 5020 5451483 1.00
Klebsiella pneumoniae
57.28 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP021942 0.21089700 1705
AI2600_v1_c2 22 405 Browse 30 191 188493 1.31
Klebsiella pneumoniae
51.68 Conjugative IncFII, IncFIB 000124__KP125893_00142, 000107__CP014778_00094 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_019165_00034, NC_021654_00016, NC_011281_00082, NC_022609_00081, NC_014312_00128, NC_019389_00068, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019155_00032 - - KY271404 0.00770681 770
AI2600_v1_c3 22 405 Browse 0 113 111043 1.17
Klebsiella pneumoniae
49.10 Non-mobilizable IncFIB 000100__NZ_CP016161_00012 - - - - - - CP012427 0.01855790 80
AI2600_v1_c4 22 405 Browse 1 84 63779 2.00
Klebsiella pneumoniae
51.23 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_00068, NC_019154_00069, NC_005246_00069, NC_004464_00073 - - CP015075 0.00000000 681