Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Primary care
Patient Sex M
Patient Age 76
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation wound
Infection or Colonization I
Outbreak None
Genus/Species
Enterobacter cloacae complex
Carbapenamase type(s) OXA-48
MLST 171:dnaA(49), fusA(21), gyrB(19), leuS(44), pyrG(45), rplB(12), rpoB(32)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper >256 R R
P/T >256 R R
CTX 1 S S
CAZ 1 S S
CAZ-AVI ≤0.25 S S
CEF 0.5 S S
AZT 2 S I
MEM 1 S S
IMI 1 S S
IMI-RELE 1 S S
ERT 0.25 S S
FOSFO None None None
GENTA 128 R R
TOBRA 16 R R
AMK 4 S S
CIP 2 R R
COLIS <0.06 WT S
AI3038_v1
AI3038_v1

Sample 280 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
AI3038_v1_c1 280 171 Browse 39 4401 4731638 1.00
Enterobacter hormaechei
55.20 Non-mobilizable - - - - - - - - CP008824 0.17817300 966
AI3038_v1_c2 280 171 Browse 1 84 63570 5.63
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 0.00000000 681
AI3038_v1_c3 280 171 Browse 0 6 4183 30.31
Klebsiella michiganensis
37.20 Non-mobilizable - - - - - - - - KP008371 0.17092600 1589
AI3038_v1_c4 280 171 Browse 0 3 2495 5.80
Enterobacter hormaechei
51.42 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOB_unknown NC_017722 CP010389 0.00123693 215
AI3038_v1_c5 280 171 Browse 0 2 2317 7.65
Klebsiella pneumoniae
49.24 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOBP CP018941 CP018317 0.02027970 58