Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario La Princesa (Madrid)
Hospital Admission Unit Urology
Patient Sex M
Patient Age 83
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation blood culture
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella oxytoca
Carbapenamase type(s) VIM-1
MLST 36:gapA(1), infB(7), mdh(2), pgi(15), phoE(21), rpoB(1), tonB(14)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper 128 R R
P/T 64 I R
CTX 128 R R
CAZ >128 R R
CAZ-AVI 64 R R
CEF 32 R R
AZT 8 I R
MEM 1 S S
IMI 2 I S
IMI-RELE 1 S S
ERT 1 I R
FOSFO 64 S R
GENTA 32 R R
TOBRA 4 S R
AMK 2 S S
CIP >128 R R
COLIS <0.06 WT S
AI2918_v1
AI2918_v1

Sample 204 was assembled with Unicycler_v0.4.6 into 7 scaffolds, 7 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
AI2918_v1_c1 204 36 Browse 32 5305 5811774 1.00
Klebsiella oxytoca
55.18 Non-mobilizable - - - - - - - - CP003027 0.24376100 3557
AI2918_v1_c2 204 36 Browse 28 176 165787 1.51
Klebsiella quasipneumoniae
52.17 Non-mobilizable IncFII, IncFIB 000107__CP014778_00094, 000113__CP022035, 000132__HG969996 - - - - - - CP014697 0.00202665 711
AI2918_v1_c3 204 36 Browse 0 117 107836 1.36
Klebsiella variicola
49.61 Non-mobilizable IncFIB 000100__NZ_CP016161_00012 - - - - - - CP021714 0.02293060 80
AI2918_v1_c4 204 36 Browse 5 87 64401 2.87
Klebsiella pneumoniae
51.21 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 - - KU159085 0.00451781 681
AI2918_v1_c5 204 36 Browse 10 38 33557 6.69
Alcaligenes faecalis
54.84 Non-mobilizable IncU 000211__KU963389_00011 - - - - - - HE616910 0.01100070 2725
AI2918_v1_c6 204 36 Browse 0 8 6396 8.31
Klebsiella pneumoniae
44.34 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP018739 0.07629850 207
AI2918_v1_c7 204 36 Browse 0 2 2495 24.49
Enterobacter hormaechei
51.46 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOB_unknown NC_017722 CP010389 0.00098187 215