Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Ramón y Cajal (Madrid)
Hospital Admission Unit None
Patient Sex M
Patient Age 62
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) KPC-3
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 128 R R
CAZ 128 R R
CAZ-AVI 1 S S
CEF 64 R R
AZT 128 R R
MEM 4 R I
IMI 4 R I
IMI-RELE 0.5 S S
ERT 2 R R
FOSFO 256 R R
GENTA 64 R R
TOBRA 32 R R
AMK 2 S S
CIP 128 R R
COLIS <0.06 WT S
AI2655_v1
AI2655_v1

Sample 184 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
AI2655_v1_c1 184 307 Browse 30 4840 5271187 1.00
Klebsiella pneumoniae
57.54 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI2655_v1_c2 184 307 Browse 31 235 242483 1.08
Klebsiella pneumoniae
52.29 Conjugative IncFII, IncFIB 000124__KP125893_00142, 000107__CP014778_00094 MOBF NC_021231_00058 MPF_F NC_021502_00150, 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, NC_019155_00032 - - KY271404 0.00131423 770
AI2655_v1_c3 184 307 Browse 9 124 114836 0.44
Klebsiella pneumoniae
53.92 Conjugative IncFII, IncFIB 000113__CP022035, 000097__NC_025166_00051, 000130__CP023489 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_019165_00034, NC_021654_00016, NC_022609_00081, NC_014312_00128, NC_019389_00068, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019389_00080, NC_023905_00125 - - HG969997 0.00090612 1220
AI2655_v1_c4 184 307 Browse 0 5 6761 19.10
Klebsiella pneumoniae
50.07 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP011626 0.07335450 607
AI2655_v1_c5 184 307 Browse 0 5 5216 8.74
Klebsiella pneumoniae
49.77 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006, NC_019986_00002 - - - - CP018444 0.00088095 190
AI2655_v1_c6 184 307 Browse 0 6 4859 6.93
Escherichia coli
52.40 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_016979_00005 - - MOBP NZ_CP011140 CP006638 0.04551590 189
AI2655_v1_c7 184 307 Browse 0 1 1917 15.57
Enterobacter hormaechei
52.27 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOBP NC_010936 KT074362 0.07707080 163