Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Marqués de Valdecilla (Santander)
Hospital Admission Unit None
Patient Sex F
Patient Age 54
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation sputum
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 11:gapA(3), infB(3), mdh(1), pgi(1), phoE(1), rpoB(1), tonB(4)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper >256 R R
P/T >256 R R
CTX 64 R R
CAZ 64 R R
CAZ-AVI 2 S S
CEF 64 R R
AZT 64 R R
MEM 0.5 S S
IMI 1 S S
IMI-RELE 0.5 S S
ERT 0.12 S S
FOSFO <32 S S
GENTA 128 R R
TOBRA 16 R R
AMK 1 S S
CIP 64 R R
COLIS <0.06 WT S
AI2755_v2
AI2755_v2

Sample 388 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
AI2755_v2_c1 388 11 Browse 26 5006 5346895 1.00 None 57.42 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.20360400 1583
AI2755_v2_c2 388 11 Browse 15 216 204116 1.16 None 51.78 Non-mobilizable IncFII, IncFIB 000107__CP014778_00094, 000113__CP022035, 000132__HG969996 - - MPF_F 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_021654_00004 - - CP020109 0.00763299 769
AI2755_v2_c3 388 11 Browse 1 86 66274 2.02 None 51.45 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 0.00014350 681
AI2755_v2_c4 388 11 Browse 2 35 34128 1.72 None 48.48 Conjugative IncR 000204__CP008701_00115 MOBF, MOBP NC_015599_00019, NC_021576_00050 MPF_T NC_022375_00024 MOBF NZ_CP012928 LC155908 0.02904890 731