Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Vall d'Hebron (Barcelona)
Hospital Admission Unit Pneumology
Patient Sex M
Patient Age 52
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella quasipneumoniae
Carbapenamase type(s) VIM-1
MLST 0:
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 >128 R R
CEF >128 R R
AZT 2 S I
MEM 1 S S
IMI 2 I S
IMI-RELE 2 I S
ERT 16 R R
FOSFO 64 S R
GENTA 2 S S
TOBRA 8 I R
AMK 1 S S
CIP 1 R R
COLIS 0.25 WT S
AI3010_v1
AI3010_v1

Sample 450 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
AI3010_v1_c1 450 0 Browse 27 4720 5123431 1.00
Klebsiella quasipneumoniae
58.15 Non-mobilizable - - - - - - - - CP000637 0.29598100 2527
AI3010_v1_c2 450 0 Browse 20 134 131788 0.64
Klebsiella pneumoniae
52.41 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_021231_00085 - - CP006927 0.03272270 769
AI3010_v1_c3 450 0 Browse 9 65 51757 1.53
Klebsiella pneumoniae
52.78 Conjugative IncN 000155__CP018649 MOBF NC_015599_00019 MPF_T NC_009131_00030, NC_011617_00041, NC_014368_00014, NC_007682_00044, NC_008612_00190, NC_022375_00024 MOBF NZ_CP016498 KC960485 0.00489536 933
AI3010_v1_c4 450 0 Browse 0 5 4375 18.43
Klebsiella pneumoniae
41.92 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - AF156893 0.05884830 196