Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Valencia Tres cruces (Valencia)
Hospital Admission Unit Primary care
Patient Sex F
Patient Age 88
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 307:gapA(4), infB(1), mdh(2), pgi(52), phoE(1), rpoB(1), tonB(7)
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 0.5 S S
CEF 128 R R
AZT >128 R R
MEM ≤0.12 S S
IMI 0.25 S S
IMI-RELE ≤0.12 S S
ERT 8 R R
FOSFO >256 R R
GENTA ≤0.25 S S
TOBRA ≤0.25 S S
AMK >128 R R
CIP >128 R R
COLIS <0.06 WT S
AI2786_v1
AI2786_v1

Sample 438 was assembled with Unicycler_v0.4.6 into 6 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
AI2786_v1_c1 438 307 Browse 29 4984 5373083 1.00
Klebsiella pneumoniae
57.40 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI2786_v1_c2 438 307 Browse 9 255 256348 1.15
Klebsiella pneumoniae
47.15 Conjugative rep_cluster_1150 000430__CP020850 MOBH NC_016980_00239 MPF_F NC_016980_00240, NC_018107_00101, NC_016980_00110, NC_016980_00109, NC_016980_00099, NC_018107_00235, NC_023911_00309 - - MF150122 0.02088220 1530
AI2786_v1_c3 438 307 Browse 1 82 63589 1.68
Escherichia coli, 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
AI2786_v1_c4 438 307 Browse 0 44 44406 5.14
Klebsiella pneumoniae
49.78 Non-mobilizable - - - - - - - - CP015501 0.07029180 1530
AI2786_v1_c5 438 307 Browse 0 4 3991 9.67
Klebsiella pneumoniae
44.35 Non-mobilizable rep_cluster_2050 001473__CP024541 - - - - - - CP012558 0.08624910 195
AI2786_v1_c6 438 307 Browse 0 4 3223 16.00
Klebsiella michiganensis, Klebsiella pneumoniae
56.35 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_013090_00004 - - MOBP CP018941 CP016867 0.00019163 133