Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Clínic (Barcelona)
Hospital Admission Unit Hepatologyc ICU
Patient Sex M
Patient Age 63
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation peritoneal fluid
Infection or Colonization I
Outbreak None
Genus/Species
Enterobacter cloacae complex
Carbapenamase type(s) VIM-1
MLST 413:dnaA(135), fusA(98), gyrB(152), leuS(159), pyrG(139), rplB(68), rpoB(91)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper 4 S S
P/T 4 S S
CTX 128 R R
CAZ >128 R R
CAZ-AVI >128 R R
CEF 64 R R
AZT 0.5 S S
MEM 0.5 S S
IMI 1 S S
IMI-RELE 0.5 S S
ERT 2 R R
FOSFO <32 S S
GENTA 1 S S
TOBRA 8 I R
AMK 0.5 S S
CIP 8 R R
COLIS 0.25 WT S
AI2839_v1
AI2839_v1

Sample 82 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
AI2839_v1_c1 82 413 Browse 31 4651 4986143 1.00
Enterobacter cloacae
55.15 Non-mobilizable - - - - - - - - CP008824 0.18676100 966
AI2839_v1_c2 82 413 Browse 0 77 67173 1.45
Enterobacter cloacae
51.87 Non-mobilizable IncR, IncFIA 000204__CP008701_00115, 000093__KX023259_00112 - - - - - - CP008898 0.04003730 732
AI2839_v1_c3 82 413 Browse 13 34 28119 9.97
Alcaligenes faecalis
55.13 Non-mobilizable IncU 000211__KU963389_00011 - - - - - - HE616910 0.00659353 2725
AI2839_v1_c4 82 413 Browse 0 5 4514 11.19
Salmonella enterica
50.91 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006 - - MOBP NC_019292 CP003994 0.06510850 133
AI2839_v1_c5 82 413 Browse 0 2 2511 11.57
Enterobacter hormaechei
51.81 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOB_unknown NC_019094 CP012166 0.00334352 215