Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Mutua de Terrassa (Terrassa)
Hospital Admission Unit Internal medicine
Patient Sex F
Patient Age 86
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 147:gapA(3), infB(4), mdh(6), pgi(1), phoE(7), rpoB(4), tonB(38)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper >256 R R
P/T 256 R R
CTX >128 R R
CAZ >128 R R
CAZ-AVI 1 S S
CEF >128 R R
AZT >128 R R
MEM 16 R R
IMI 4 R I
IMI-RELE 2 I S
ERT 64 R R
FOSFO 32 S S
GENTA >256 R R
TOBRA >256 R R
AMK 128 R R
CIP 32 R R
COLIS 0.25 WT S
AI2856_v1
AI2856_v1

Sample 106 was assembled with Unicycler_v0.4.6 into 8 scaffolds, 7 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
AI2856_v1_c1 106 147 Browse 32 4877 5278098 1.00
Klebsiella pneumoniae
57.39 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.19729200 1583
AI2856_v1_c2 106 147 Browse 4 122 121082 0.94
Klebsiella pneumoniae
53.24 Conjugative IncFII, rep_cluster_1418 000759__NC_013950_00034, 000118__KJ958926_00047 MOBP NC_021198_00256 MPF_I NC_021198_00230, NC_021198_00234, NC_021198_00235, NC_021198_00236, NC_021198_00238, NC_021198_00239, NC_021198_00240, NC_021198_00243, NC_021198_00249 - - CP021758 0.00007159 1713
AI2856_v1_c3 106 147 Browse 9 78 75254 3.06
Klebsiella pneumoniae
52.08 Mobilizable ColRNAI_rep_cluster_1987, IncR, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005, 000204__CP008701_00115 MOBP NC_021576_00050 - - - - CP021761 0.00748619 727
AI2856_v1_c4 106 147 Browse 1 83 63589 1.69
Klebsiella pneumoniae
51.22 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 - - CP015075 0.00000000 681
AI2856_v1_c5 106 147 Browse 0 52 54404 3.71
Klebsiella pneumoniae
53.17 Non-mobilizable rep_cluster_1 000232__CP012429 - - - - - - CP021760 0.00002383 1705
AI2856_v1_c6 106 147 Browse 0 6 7926 12.40
-, Citrobacter freundii, Enterobacter cloacae, Enterobacter hormaechei, Escherichia coli
48.20 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP000651 0.01843520 206
AI2856_v1_c7 106 147 Browse 0 4 4715 21.84
Klebsiella pneumoniae
41.12 Mobilizable ColRNAI_rep_cluster_1857 000008__AJ627566 - - - - MOBP, MOB_unknown NC_019986, AP017298 DQ286390 0.00238081 33
AI2856_v1_c8 106 147 Browse 0 1 2674 12.23
Klebsiella pneumoniae
31.19 Non-mobilizable - - - - - - - - 1.00000000