Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Lucus Augusti (Lugo)
Hospital Admission Unit Emergencies
Patient Sex M
Patient Age 48
Community/Hospital/LTCF acquisition Hospital
Biological Sample of Isolation anal-rectal
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 >128 R R
CAZ 128 R R
CAZ-AVI 0.25 S S
CEF 64 R R
AZT 128 R R
MEM 0.25 S S
IMI 0.5 S S
IMI-RELE 0.25 S S
ERT 2 R R
FOSFO <32 S S
GENTA 32 R R
TOBRA 32 R R
AMK 8 S S
CIP 128 R R
COLIS <0.06 WT S
AN2355_v1
AN2355_v1

Sample 490 was assembled with Unicycler_v0.4.6 into 6 scaffolds, 6 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
AN2355_v1_c1 490 307 Browse 34 4889 5311354 1.00
Klebsiella pneumoniae
57.46 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AN2355_v1_c2 490 307 Browse 32 195 192775 0.74
Klebsiella pneumoniae
51.99 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 0.00857671 770
AN2355_v1_c3 490 307 Browse 1 84 65498 3.05
Klebsiella pneumoniae
51.43 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 - - KX523901 0.00134007 681
AN2355_v1_c4 490 307 Browse 0 6 4938 51.19
Cronobacter sakazakii
54.84 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006, NC_011404_00002 - - MOBP HQ328804 CP011049 0.00110890 98
AN2355_v1_c5 490 307 Browse 0 5 4096 35.20
Klebsiella michiganensis, Salmonella enterica
55.52 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006, NC_013090_00004 - - MOBP CP007070 CP016528 0.00023990 213
AN2355_v1_c6 490 307 Browse 0 3 2495 71.65
Enterobacter hormaechei
51.46 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOB_unknown NC_017722 CP010389 0.00093133 215