Collection SERGAS
Isolation Year 2017
Isolation Location Complejo Asistencial Universitario de Salamanca (Salamanca)
Hospital Admission Unit Internal medicine
Patient Sex F
Patient Age 86
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation blood culture
Infection or Colonization I
Outbreak None
Genus/Species
Serratia marcescens
Carbapenamase type(s) VIM-1
MLST 0:
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper 8 S S
P/T 8 S S
CTX 32 R R
CAZ 64 R R
CAZ-AVI 64 R R
CEF 16 R R
AZT ≤0.25 S S
MEM 1 S S
IMI 2 I S
IMI-RELE 2 I S
ERT 2 R R
FOSFO <32 S S
GENTA 0.5 S S
TOBRA 4 S R
AMK 2 S S
CIP 16 R R
COLIS 4 NWT R
AI2616_v1
AI2616_v1

Sample 47 was assembled with Unicycler_v0.4.6 into 4 scaffolds, 4 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
AI2616_v1_c1 47 0 Browse 14 4657 5186317 1.00
Serratia marcescens
59.88 Non-mobilizable - - - - - - - - CP013538 0.26302200 1801
AI2616_v1_c2 47 0 Browse 8 89 70086 2.83
Klebsiella pneumoniae
51.92 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 - - KU159085 0.00655869 681
AI2616_v1_c3 47 0 Browse 0 4 3223 28.11
Klebsiella pneumoniae
56.35 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_013090_00004 - - MOBP CP018941 CP016867 0.00026408 133
AI2616_v1_c4 47 0 Browse 0 1 2912 18.02
Escherichia coli
49.28 Non-mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - - - CP003960 0.11990900 3203