Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Ramón y Cajal (Madrid)
Hospital Admission Unit None
Patient Sex M
Patient Age 71
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation abscess
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 32 I R
P/T 16 S ATU
CTX >128 R R
CAZ 128 R R
CAZ-AVI 1 S S
CEF >128 R R
AZT >128 R R
MEM 0.25 S S
IMI 1 S S
IMI-RELE 1 S S
ERT 4 R R
FOSFO 128 I R
GENTA ≤0.25 S S
TOBRA ≤0.25 S S
AMK 2 S S
CIP >128 R R
COLIS <0.06 WT S
AI2875_v1
AI2875_v1

Sample 141 was assembled with Unicycler_v0.4.6 into 3 scaffolds, 3 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
AI2875_v1_c1 141 11 Browse 31 5060 5396535 1.00
Klebsiella pneumoniae
57.40 Non-mobilizable rep_cluster_24 001516__NC_015969_00028 - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.20360400 1583
AI2875_v1_c2 141 11 Browse 20 145 130198 1.48
Klebsiella pneumoniae
51.41 Non-mobilizable IncFIB 000107__CP014778_00094 - - - - - - CP011623 0.02681900 1586
AI2875_v1_c3 141 11 Browse 1 81 64722 3.32
Klebsiella pneumoniae
51.41 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 0.00007159 681