Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Ramón y Cajal (Madrid)
Hospital Admission Unit None
Patient Sex M
Patient Age 71
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation BAS
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 128 R R
AZT 128 R R
MEM 2 I S
IMI 2 I S
IMI-RELE 0.25 S S
ERT 2 R R
FOSFO <32 S S
GENTA 64 R R
TOBRA 8 I R
AMK 1 S S
CIP 128 R R
COLIS <0.06 WT S
AI2650_v1
AI2650_v1

Sample 172 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
AI2650_v1_c1 172 307 Browse 30 4838 5271191 1.00
Klebsiella pneumoniae
57.54 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI2650_v1_c2 172 307 Browse 31 236 242397 0.99
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 0.00134007 770
AI2650_v1_c3 172 307 Browse 9 122 114840 0.91
Escherichia coli, 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 0.00050801 1220
AI2650_v1_c4 172 307 Browse 0 4 6761 25.41
Klebsiella pneumoniae
50.07 Non-mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - - - CP011626 0.07443240 607
AI2650_v1_c5 172 307 Browse 0 5 5225 8.84
Klebsiella pneumoniae
49.76 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006, NC_016151_00005 - - - - CP018444 0.00080567 190
AI2650_v1_c6 172 307 Browse 0 6 4859 6.89
Escherichia coli
52.40 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_016979_00005 - - MOBP NZ_CP011140 CP006638 0.04551590 189
AI2650_v1_c7 172 307 Browse 0 1 1917 14.14
Enterobacter hormaechei
52.27 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOBP NC_010936 KT074362 0.07707080 163