Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Valencia Tres cruces (Valencia)
Hospital Admission Unit Primary care
Patient Sex M
Patient Age 83
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 307:gapA(4), infB(1), mdh(2), pgi(52), phoE(1), rpoB(1), tonB(7)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper >256 R R
P/T >256 R R
CTX 8 R R
CAZ 4 S I
CAZ-AVI 1 S S
CEF 1 S S
AZT 0.5 S S
MEM 0.25 S S
IMI 0.5 S S
IMI-RELE ≤0.12 S S
ERT 4 R R
FOSFO >256 R R
GENTA 0.5 S S
TOBRA 8 I R
AMK 2 S S
CIP 64 R R
COLIS <0.06 WT S
AI2791_v1
AI2791_v1

Sample 443 was assembled with Unicycler_v0.4.6 into 5 scaffolds, 5 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
AI2791_v1_c1 443 307 Browse 29 4986 5373656 1.00
Klebsiella pneumoniae
57.40 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI2791_v1_c2 443 307 Browse 9 300 300713 1.30
Klebsiella pneumoniae
47.54 Conjugative rep_cluster_1150 000430__CP020850 MOBH NC_016980_00239 MPF_F NC_016980_00240, NC_018107_00101, NC_016980_00110, NC_016980_00109, NC_016980_00099, NC_018107_00235, NC_023911_00309 - - CP015501 0.01825240 1530
AI2791_v1_c3 443 307 Browse 25 181 169661 0.90
Klebsiella pneumoniae
51.48 Conjugative IncFII, IncFIB 000124__KP125893_00142, 000107__CP014778_00094 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_014312_00141, NC_019165_00034, NC_021654_00016, NC_011281_00082, NC_022609_00081, NC_014312_00128, NC_019389_00068, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131 - - CP009879 0.00157453 770
AI2791_v1_c4 443 307 Browse 1 84 63589 3.16
Klebsiella pneumoniae
51.22 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 - - CP015075 0.00004769 681
AI2791_v1_c5 443 307 Browse 0 4 3991 17.37
Klebsiella pneumoniae
44.35 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP012558 0.08724390 195