Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Primary care
Patient Sex M
Patient Age 73
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation urine
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella oxytoca
Carbapenamase type(s) OXA-48
MLST 327:gapA(4), infB(6), mdh(68), pgi(11), phoE(46), rpoB(5), tonB(79)
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 16 R R
AZT >128 R R
MEM 4 R I
IMI 2 I S
IMI-RELE 2 I S
ERT 16 R R
FOSFO 32 S S
GENTA 4 S R
TOBRA 8 I R
AMK 64 R R
CIP 16 R R
COLIS <0.06 WT S
AI2943_v1
AI2943_v1

Sample 241 was assembled with Unicycler_v0.4.6 into 9 scaffolds, 9 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
AI2943_v1_c1 241 327 Browse 28 5304 5773088 1.00
Klebsiella grimontii
55.83 Non-mobilizable - - - - - - - - CP007558 0.21953100 966
AI2943_v1_c2 241 327 Browse 22 125 123302 1.17
Klebsiella grimontii
52.72 Mobilizable IncFIA 000093__KX023259_00112 MOBF NC_021231_00058 - - - - CP008789 0.04821050 706
AI2943_v1_c3 241 327 Browse 0 108 93629 1.49
Klebsiella quasipneumoniae
51.92 Non-mobilizable IncFII, rep_cluster_1418 000124__KP125893_00142, 000759__NC_013950_00034 - - MPF_F NC_021502_00150, NC_019165_00034, NC_019155_00032 - - CP020843 0.03936560 1585
AI2943_v1_c4 241 327 Browse 0 63 70199 1.31
Raoultella planticola
52.27 Non-mobilizable IncFIB 000097__NC_025166_00051 - - - - - - CP013340 0.07162270 1715
AI2943_v1_c5 241 327 Browse 1 86 63570 1.76
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 0.00002383 681
AI2943_v1_c6 241 327 Browse 2 58 47284 2.64
Klebsiella pneumoniae, Salmonella enterica
51.31 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 CP014524 0.00322742 933
AI2943_v1_c7 241 327 Browse 0 44 35017 3.17
Citrobacter amalonaticus
44.14 Conjugative - - MOBP NC_020552_00059 MPF_T NC_023277_00163, NC_019157_00029, NC_019157_00030, NC_019083_00030, NC_017624_00009 - - JN935899 0.02041230 667
AI2943_v1_c8 241 327 Browse 0 5 5895 17.15
Salmonella enterica
42.95 Mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - MOBP CP007658 CP001112 0.02716350 623
AI2943_v1_c9 241 327 Browse 0 3 3897 22.90
Klebsiella sp.
42.29 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP018739 0.05435890 207