Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Internal medicine
Patient Sex F
Patient Age 89
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation sputum
Infection or Colonization I
Outbreak None
Genus/Species
Escherichia coli
Carbapenamase type(s) OXA-48
MLST 131:adk(53), fumC(40), gyrB(47), icd(13), mdh(36), purA(28), recA(29)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper >256 R R
P/T 256 R R
CTX 2 I I
CAZ 1 S S
CAZ-AVI ≤0.25 S S
CEF 2 S I
AZT 0.5 S S
MEM 0.5 S S
IMI 1 S S
IMI-RELE 0.25 S S
ERT 2 R R
FOSFO <32 S S
GENTA 256 R R
TOBRA 32 R R
AMK 8 S S
CIP >128 R R
COLIS <0.06 WT S
AI2949_v1
AI2949_v1

Sample 264 was assembled with Unicycler_v0.4.6 into 3 scaffolds, 3 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
AI2949_v1_c1 264 131 Browse 78 4921 5212580 1.00
Escherichia coli
50.66 Mobilizable - - MOBP NC_011416_00039 - - - - CP005931 0.21089700 969
AI2949_v1_c2 264 131 Browse 9 148 128607 1.63
Escherichia coli
52.34 Conjugative IncFII, IncFIB, IncFIIA, IncFIA 000136__AP014877_00014, 000094__NZ_CP015070_00117, 000121__CP024805, 000095__NZ_CP014273_00094 MOBF NC_017627_00068 MPF_F NC_010488_00021, NC_017639_00100, NC_007675_00027, NC_013437_00116, NC_017639_00094, NC_019094_00090, NC_010409_00124, NC_022651_00077, 08-5333_00200, NC_014615_00033, NC_018966_00040, NC_010719_00096 MOBF FN868248 CP018990 0.00881017 1555
AI2949_v1_c3 264 131 Browse 0 8 6647 7.34
Escherichia coli
48.50 Mobilizable ColRNAI_rep_cluster_1857 000008__AJ627566 MOBP NC_019076_00002 - - MOBP MF083142 CP019025 0.00009552 23