Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Marqués de Valdecilla (Santander)
Hospital Admission Unit None
Patient Sex F
Patient Age 72
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation blood culture
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 >128 R R
CAZ >128 R R
CAZ-AVI 0.5 S S
CEF 128 R R
AZT >128 R R
MEM ≤0.12 S S
IMI ≤0.12 S S
IMI-RELE ≤0.12 S S
ERT 4 R R
FOSFO 256 R R
GENTA ≤0.25 S S
TOBRA 4 S R
AMK 4 S S
CIP >128 R R
COLIS 0.12 WT S
AI2989_v1
AI2989_v1

Sample 375 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
AI2989_v1_c1 375 11 Browse 31 4989 5328270 1.00
Klebsiella pneumoniae
57.47 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.20360400 1583
AI2989_v1_c2 375 11 Browse 28 205 202877 1.07
Klebsiella pneumoniae
52.62 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 - - CP009777 0.00393593 767
AI2989_v1_c3 375 11 Browse 1 84 65498 2.29
Klebsiella pneumoniae
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 0.00011950 681
AI2989_v1_c4 375 11 Browse 11 65 62634 2.09
Escherichia coli, Klebsiella pneumoniae
50.31 Conjugative IncR 000204__CP008701_00115 MOBF, MOBP NC_015599_00019, NC_021576_00050 MPF_T NC_022375_00024 MOBF NZ_CP012928 CP021761 0.03057850 727