Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Vall d'Hebron (Barcelona)
Hospital Admission Unit ICU
Patient Sex F
Patient Age 39
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella oxytoca
Carbapenamase type(s) VIM-1
MLST 2:gapA(1), infB(2), mdh(2), pgi(1), phoE(2), rpoB(1), tonB(2)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper 128 R R
P/T 128 R R
CTX >128 R R
CAZ >256 R R
CAZ-AVI 256 R R
CEF 128 R R
AZT 2 S I
MEM 0.25 S S
IMI 0.5 S S
IMI-RELE 0.5 S S
ERT 2 R R
FOSFO <32 S S
GENTA 16 R R
TOBRA 32 R R
AMK 4 S S
CIP 16 R R
COLIS <0.06 WT S
AI3012_v1
AI3012_v1

Sample 456 was assembled with Unicycler_v0.4.6 into 7 scaffolds, 2 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
AI3012_v1_c1 456 2 Browse 18 2852 3102077 1.00
Klebsiella oxytoca
55.05 Non-mobilizable rep_cluster_1527 000882__CP012005_00092 - - - - - - HG428756 0.21089700 487
AI3012_v1_c2 456 2 Browse 16 2627 2884387 1.03
Klebsiella oxytoca
55.03 Non-mobilizable - - - - - - - - CP021741 0.21953100 1225
AI3012_v1_c3 456 2 Browse 15 50 42657 2.48
Citrobacter sp.
54.61 Mobilizable IncR 000204__CP008701_00115 MOBP NC_021576_00050 - - - - CP014299 0.00666341 730
AI3012_v1_c4 456 2 Browse 0 46 37836 2.02
Klebsiella quasipneumoniae
55.18 Non-mobilizable - - - - - - - - 1.00000000
AI3012_v1_c5 456 2 Browse 0 4 2511 39.20
Enterobacter hormaechei
51.81 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOB_unknown NC_019094 CP012166 0.00308338 215
AI3012_v1_c6 456 2 Browse 0 1 1112 1.97
Klebsiella oxytoca
48.74 Non-mobilizable - - - - - - - - 1.00000000
AI3012_v1_c7 456 2 Browse 0 0 152 1.99
Klebsiella oxytoca, Klebsiella pneumoniae
56.58 Non-mobilizable - - - - - - - - 1.00000000