Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Marqués de Valdecilla (Santander)
Hospital Admission Unit None
Patient Sex F
Patient Age 67
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation wound
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 5000:gapA(3), infB(3), mdh(113), pgi(1), phoE(1), rpoB(1), tonB(4)
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 1 S S
IMI 1 S S
IMI-RELE 0.5 S S
ERT >128 R R
FOSFO 256 R R
GENTA 64 R R
TOBRA 16 R R
AMK >128 R R
CIP 32 R R
COLIS <0.06 WT S
AI2754_v5
AI2754_v5

Sample 386 was assembled with Unicycler_v0.4.6 into 5 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
AI2754_v5_c1 386 5000 Browse 26 5075 5395020 1.00
Klebsiella pneumoniae
57.40 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.20360400 1583
AI2754_v5_c2 386 5000 Browse 5 217 212947 1.21
Klebsiella pneumoniae
52.85 Non-mobilizable IncFII, IncFIB 000107__CP014778_00094, 000113__CP022035, 000132__HG969996 - - MPF_F NC_019165_00034, NC_021654_00016, NC_022609_00081, NC_014312_00128, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019389_00080, NC_019155_00032, NC_021654_00004 - - CP009777 0.00277069 767
AI2754_v5_c3 386 5000 Browse 2 93 71569 2.48
Klebsiella pneumoniae
51.26 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 0.00218918 681
AI2754_v5_c4 386 5000 Browse 7 54 50874 2.15
Klebsiella pneumoniae
50.24 Conjugative IncR 000204__CP008701_00115 MOBF, MOBP NC_015599_00019, NC_021576_00050 MPF_T NC_022375_00024 MOBF NZ_CP012928 CP014299 0.02581150 730
AI2754_v5_c5 386 5000 Browse 0 4 3219 11.90
Klebsiella pneumoniae
56.32 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_013090_00004 - - MOBP CP018941 CP011604 0.00045892 133