Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Marqués de Valdecilla (Santander)
Hospital Admission Unit None
Patient Sex F
Patient Age 84
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Enterobacter cloacae complex
Carbapenamase type(s) OXA-48, IMP-13
MLST 182:dnaA(49), fusA(20), gyrB(19), leuS(44), pyrG(90), rplB(24), rpoB(32)
EDTA Assay (if any) None
PCR Result (if any) VIM negative, IMP positive and OXA-48 positive
Agent MIC CLSI EUCAST
Piper 128 R R
P/T 128 R R
CTX 128 R R
CAZ 128 R R
CAZ-AVI 64 R R
CEF 128 R R
AZT 64 R R
MEM 1 S S
IMI 1 S S
IMI-RELE 0.5 S S
ERT 16 R R
FOSFO <32 S S
GENTA 4 S R
TOBRA 8 I R
AMK 2 S S
CIP >128 R R
COLIS 0.12 WT S
AI2760_v1
AI2760_v1

Sample 393 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
AI2760_v1_c1 393 182 Browse 28 4431 4716093 1.00
Enterobacter cloacae
55.47 Conjugative IncP 000164__NC_022344_00310 MOBP NC_022344_00316 MPF_T NC_022344_00321, NC_022344_00326, NC_022344_00330, NC_008757_00079 - - KP899803 0.19729200 840
AI2760_v1_c2 393 182 Browse 10 301 279526 1.92
Enterobacter cloacae
51.38 Conjugative IncFII, IncFIB 000135__NC_014107_00001, 000108__NC_014107_00054 MOBF NC_014107_00160 MPF_F NC_014107_00125, NC_014107_00126, NC_014107_00127, NC_009425_00108, NC_014107_00135, NC_014107_00137, NC_014107_00139, NC_014107_00145, NC_014107_00146, NC_014107_00154, NC_014107_00155, NC_014107_00159, NC_014107_00147 - - KX810825 0.05133700 429
AI2760_v1_c3 393 182 Browse 0 79 71107 4.27
Escherichia albertii
52.12 Conjugative IncFII, IncFIIA 000136__AP014877_00014, 000121__CP024805 MOBF NC_017627_00068 MPF_F NC_008460_00107, 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_019094_00068 - - CP018107 0.02622660 528
AI2760_v1_c4 393 182 Browse 1 85 65498 3.37
Klebsiella pneumoniae
51.43 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 - - KX523901 0.00011950 681
AI2760_v1_c5 393 182 Browse 5 38 30363 5.34
Pseudomonas aeruginosa
61.12 Mobilizable IncP 000169__CP016835_00012 MOBP NC_009739_00028 - - - - AM778842 0.00977265 1729
AI2760_v1_c6 393 182 Browse 0 2 3200 14.52
Salmonella enterica
46.09 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOBP CP018941 HE652087 0.05076360 156