Collection SERGAS
Isolation Year 2017
Isolation Location Complejo Asistencial Universitario de Salamanca (Salamanca)
Hospital Admission Unit ICU
Patient Sex M
Patient Age 74
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
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 16 S I
P/T 16 S ATU
CTX >128 R R
CAZ >128 R R
CAZ-AVI 128 R R
CEF 16 R R
AZT >128 R R
MEM ≤0.25 S S
IMI ≤0.25 S S
IMI-RELE ≤0.25 S S
ERT 1 I R
FOSFO <32 S S
GENTA 2 S S
TOBRA 4 S R
AMK 16 S R
CIP 0.5 I ATU
COLIS >128 NWT R
AI2617_v1
AI2617_v1

Sample 48 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
AI2617_v1_c1 48 0 Browse 13 5038 5480730 1.00
Serratia marcescens
58.83 Conjugative IncP 000164__NC_022344_00310 MOBP NC_022344_00316 MPF_T NC_022344_00321, NC_022344_00326, NC_022344_00330, NC_015727_00490 - - CP017294 0.19173100 3040
AI2617_v1_c2 48 0 Browse 9 216 194555 1.23
Enterobacter hormaechei
53.51 Conjugative IncA/C2 000090__FJ705807_00003 MOBH NC_012885_00072 MPF_F NC_012885_00167, NC_009140_00071, NC_012885_00082, NC_012885_00083, NC_012885_00084, NC_012885_00088, NC_012885_00091, NC_012885_00093 - - CP012168 0.02278380 964
AI2617_v1_c3 48 0 Browse 8 98 79391 2.25
Klebsiella pneumoniae
52.03 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 0.00948708 681
AI2617_v1_c4 48 0 Browse 0 13 12879 12.17
Escherichia coli
58.72 Non-mobilizable - - - - - - - - KM107845 0.05414900 4520
AI2617_v1_c5 48 0 Browse 0 3 3696 7.66
Serratia marcescens
47.32 Non-mobilizable - - - - - - - - CP003960 0.12214000 3203
AI2617_v1_c6 48 0 Browse 0 4 3223 24.99
Citrobacter freundii, Enterobacter hormaechei, Klebsiella michiganensis, Klebsiella pneumoniae, Salmonella enterica
56.28 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_013090_00004 - - MOBP CP018941 CP011569 0.00016755 133