Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Vall d'Hebron (Barcelona)
Hospital Admission Unit Primary care
Patient Sex M
Patient Age 77
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 13:gapA(2), infB(3), mdh(1), pgi(1), phoE(10), rpoB(1), tonB(19)
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 2 S I
CAZ-AVI 1 S S
CEF 8 SDD R
AZT 0.5 S S
MEM 4 R I
IMI 2 I S
IMI-RELE 1 S S
ERT 64 R R
FOSFO 64 S R
GENTA ≤0.25 S S
TOBRA ≤0.25 S S
AMK 2 S S
CIP 0.12 S S
COLIS 0.12 WT S
AI3011_v1
AI3011_v1

Sample 454 was assembled with Unicycler_v0.4.6 into 6 scaffolds, 6 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
AI3011_v1_c1 454 13 Browse 29 4921 5389685 1.00
Klebsiella pneumoniae
57.29 Conjugative - - MOBP, MOBC NC_021576_00050, NC_009779_00002 MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.21089700 1583
AI3011_v1_c2 454 13 Browse 21 197 190281 1.36
Klebsiella quasipneumoniae
52.10 Conjugative IncFII, IncFIB 000107__CP014778_00094, 000113__CP022035, 000132__HG969996 MOBF NC_021231_00058 MPF_F NC_021502_00150, 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 - - CP018351 0.00800497 769
AI3011_v1_c3 454 13 Browse 1 60 48441 6.68
Klebsiella pneumoniae
51.55 Non-mobilizable IncL/M 000148__NC_021488_00028 - - MPF_I NC_004464_00105, NC_019063_00094, NC_019344_00078, NC_004464_00066, NC_004464_00068, NC_019154_00069, NC_005246_00069, NC_004464_00073 - - CP018443 0.00113443 681
AI3011_v1_c4 454 13 Browse 0 12 10122 8.10
Klebsiella pneumoniae
54.65 Mobilizable ColRNAI_rep_cluster_1857 000011__X04466 MOBC NC_009793_00003 - - - - NC_002119 0.00948708 766
AI3011_v1_c5 454 13 Browse 0 5 6285 5.91
Klebsiella sp.
48.86 Mobilizable rep_cluster_2050 001473__CP024541 - - - - MOBP NZ_CP008718 CP000823 0.10526400 762
AI3011_v1_c6 454 13 Browse 0 8 5602 7.80
Citrobacter koseri
51.29 Mobilizable ColRNAI_rep_cluster_1857 000012__CP000801 MOBP NC_009794_00003 - - - - CP000824 0.00021574 117