Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Urology
Patient Sex M
Patient Age 72
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 64 R R
CAZ 64 R R
CAZ-AVI ≤0.25 S S
CEF 8 SDD R
AZT 64 R R
MEM 1 S S
IMI 2 I S
IMI-RELE 2 I S
ERT 2 R R
FOSFO <32 S S
GENTA 16 R R
TOBRA 4 S R
AMK 1 S S
CIP 32 R R
COLIS 0.25 WT S
AI2687_v1
AI2687_v1

Sample 269 was assembled with Unicycler_v0.4.6 into 7 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
AI2687_v1_c1 269 147 Browse 30 4890 5307304 1.00
Klebsiella pneumoniae
57.47 Non-mobilizable - - - - - - - - CP007734 0.20360400 1586
AI2687_v1_c2 269 147 Browse 15 153 157881 1.39
Klebsiella pneumoniae
50.52 Non-mobilizable IncFIB, rep_cluster_1150 000107__CP014778_00094, 000430__CP020850 - - - - - - CP021697 0.01550800 1526
AI2687_v1_c3 269 147 Browse 17 94 87775 1.39
Klebsiella pneumoniae
51.87 Non-mobilizable IncR, IncFIA, rep_cluster_1418 000204__CP008701_00115, 000093__KX023259_00112, 000759__NC_013950_00034 - - - - - - CP009116 0.02001670 726
AI2687_v1_c4 269 147 Browse 1 83 63570 1.93
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
AI2687_v1_c5 269 147 Browse 0 5 5114 10.58
Enterobacter hormaechei
52.17 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006, NC_011404_00002 - - MOBP CP018941 CP004094 0.04487590 106
AI2687_v1_c6 269 147 Browse 0 3 4167 16.61
Klebsiella pneumoniae
41.49 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - EU932690 0.00043444 205
AI2687_v1_c7 269 147 Browse 0 4 3897 10.86
Klebsiella sp.
42.37 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP018739 0.05608620 207