Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario La Princesa (Madrid)
Hospital Admission Unit Primary care
Patient Sex F
Patient Age 85
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 ≤0.25 S S
CEF >128 R R
AZT >128 R R
MEM 2 I S
IMI 2 I S
IMI-RELE 1 S S
ERT 2 R R
FOSFO >256 R R
GENTA 128 R R
TOBRA 32 R R
AMK 4 S S
CIP 128 R R
COLIS 0.12 WT S
AI2930_v1
AI2930_v1

Sample 216 was assembled with Unicycler_v0.4.6 into 5 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
AI2930_v1_c1 216 307 Browse 29 4883 5308772 1.00
Klebsiella pneumoniae
57.49 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI2930_v1_c2 216 307 Browse 31 185 179440 1.43
Klebsiella pneumoniae
51.94 Conjugative IncFII, IncFIB 000124__KP125893_00142, 000107__CP014778_00094 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_019165_00034, NC_021654_00016, NC_011281_00082, NC_022609_00081, NC_014312_00128, NC_019389_00068, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019155_00032 - - KY271404 0.00944662 770
AI2930_v1_c3 216 307 Browse 1 84 65319 2.33
Klebsiella pneumoniae
51.37 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 0.00009552 681
AI2930_v1_c4 216 307 Browse 2 57 51792 3.75
Klebsiella pneumoniae
50.95 Conjugative IncN 000155__CP018649 MOBF NC_015599_00019 MPF_T NC_009131_00030, NC_011617_00041, NC_014368_00014, NC_007682_00044, NC_008612_00190, NC_022375_00024 MOBF NZ_CP016498 CP008901 0.00454897 933
AI2930_v1_c5 216 307 Browse 0 27 24413 7.87
Escherichia coli
42.90 Non-mobilizable - - - - MPF_T NC_005814_00013, NC_013284_00016 - - CP018922 0.21089700 591