Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Central de Asturias (Oviedo)
Hospital Admission Unit Emergencies
Patient Sex M
Patient Age 70
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation blood culture
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 326:gapA(1), infB(1), mdh(1), pgi(1), phoE(1), rpoB(1), tonB(64)
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 16 R R
CAZ-AVI ≤0.25 S S
CEF 128 R R
AZT 64 R R
MEM 1 S S
IMI 2 I S
IMI-RELE 1 S S
ERT 1 I R
FOSFO <32 S S
GENTA 0.5 S S
TOBRA 16 R R
AMK 16 S R
CIP 16 R R
COLIS 0.25 WT S
AI2942_v1
AI2942_v1

Sample 240 was assembled with Unicycler_v0.4.6 into 15 scaffolds, 8 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
AI2942_v1_c1 240 326 Browse 32 4836 5278699 1.00
Klebsiella pneumoniae
57.28 Non-mobilizable - - - - - - - - CP006642 0.21953100 991
AI2942_v1_c2 240 326 Browse 20 187 181487 0.52
Klebsiella pneumoniae
52.80 Conjugative IncFII, IncFIB 000107__CP014778_00094, 000113__CP022035, 000132__HG969996 MOBF NC_021231_00058 MPF_F NC_021502_00150, 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_021231_00085 - - CP015386 0.00691005 767
AI2942_v1_c3 240 326 Browse 1 83 63570 2.10
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 0.00002383 681
AI2942_v1_c4 240 326 Browse 9 60 54263 1.27
Klebsiella pneumoniae
50.51 Non-mobilizable IncR, IncFIA, rep_cluster_1418 000204__CP008701_00115, 000093__KX023259_00112, 000759__NC_013950_00034 - - - - - - CP018737 0.01813130 726
AI2942_v1_c5 240 326 Browse 0 32 39899 1.01
Klebsiella pneumoniae
55.46 Non-mobilizable - - - - - - - - AP017380 0.29598100 4289
AI2942_v1_c6 240 326 Browse 0 47 34504 2.04
Klebsiella pneumoniae
56.21 Non-mobilizable - - - - - - - - 1.00000000
AI2942_v1_c7 240 326 Browse 0 11 9294 13.63
Klebsiella pneumoniae
55.15 Mobilizable ColRNAI_rep_cluster_1857 000003__NC_002119_00001 MOBC NC_009793_00003 - - - - MF150124 0.00009552 762
AI2942_v1_c8 240 326 Browse 0 6 5379 24.43
Klebsiella pneumoniae
45.88 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP018359 0.08249890 201
AI2942_v1_c9 240 326 Browse 0 6 4938 15.47
Enterobacter hormaechei
54.84 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_021293_00005, NC_001848_00006 - - MOBP HQ328804 CP011049 0.00085582 98
AI2942_v1_c10 240 326 Browse 0 4 3223 31.97
Klebsiella pneumoniae
56.28 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_013090_00004 - - MOBP CP018941 CP016867 0.00068098 133
AI2942_v1_c11 240 326 Browse 0 3 2143 1.91
Klebsiella pneumoniae
47.13 Non-mobilizable - - - - - - - - 1.00000000
AI2942_v1_c12 240 326 Browse 0 1 1335 37.50
-, Citrobacter freundii, Cronobacter sakazakii, Salmonella enterica
48.16 Mobilizable - - - - - - MOBP NZ_AFSD01000008 CP002129 0.19173100 248
AI2942_v1_c13 240 326 Browse 0 0 1126 1.97
Klebsiella pneumoniae
49.38 Non-mobilizable - - - - - - - - 1.00000000
AI2942_v1_c14 240 326 Browse 0 1 684 1.89
Klebsiella pneumoniae
50.58 Non-mobilizable - - - - - - - - 1.00000000
AI2942_v1_c15 240 326 Browse 0 0 159 1.96
Klebsiella pneumoniae
49.69 Non-mobilizable - - - - - - - - 1.00000000