Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Valencia Tres cruces (Valencia)
Hospital Admission Unit Emergencies
Patient Sex F
Patient Age 87
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 15:gapA(1), infB(1), mdh(1), pgi(1), phoE(1), rpoB(1), tonB(1)
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 ≤0.12 S S
IMI 0.25 S S
IMI-RELE ≤0.12 S S
ERT 2 R R
FOSFO <32 S S
GENTA 64 R R
TOBRA 16 R R
AMK 32 I R
CIP 64 R R
COLIS 0.12 WT S
AI3067_v1
AI3067_v1

Sample 429 was assembled with Unicycler_v0.4.6 into 27 scaffolds, 6 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
AI3067_v1_c1 429 15 Browse 23 3524 3835715 1.00
Klebsiella pneumoniae
57.31 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI3067_v1_c2 429 15 Browse 9 1400 1495341 0.91
Klebsiella pneumoniae
57.36 Non-mobilizable - - - - - - - - CP009883 0.20360400 840
AI3067_v1_c3 429 15 Browse 20 187 181813 0.95
Klebsiella pneumoniae
51.95 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_021654_00004 - - CP000648 0.00763299 769
AI3067_v1_c4 429 15 Browse 20 123 109149 1.46
Klebsiella pneumoniae
51.85 Conjugative IncR, IncN, IncFIA 000155__CP018649, 000204__CP008701_00115, 000093__KX023259_00112 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 KC958437 0.02170930 933
AI3067_v1_c5 429 15 Browse 0 116 108972 0.74
Klebsiella pneumoniae
49.24 Non-mobilizable IncFIB 000100__NZ_CP016161_00012 - - - - - - MF144193 0.01350160 80
AI3067_v1_c6 429 15 Browse 0 57 67238 0.90
Klebsiella pneumoniae
58.15 Non-mobilizable - - - - - - - - NC_009780 0.26302200 2556
AI3067_v1_c7 429 15 Browse 1 83 63589 2.16
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
AI3067_v1_c8 429 15 Browse 0 46 35286 0.91
Klebsiella pneumoniae
51.96 Non-mobilizable - - - - - - - - CP011063 0.24376100 1009
AI3067_v1_c9 429 15 Browse 0 4 3223 15.79
Salmonella enterica
56.35 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_013090_00004 - - MOBP CP018941 CP016867 0.00016755 133
AI3067_v1_c10 429 15 Browse 0 2 3064 0.96
Klebsiella pneumoniae
51.86 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c11 429 15 Browse 0 2 2639 0.96
Klebsiella pneumoniae
51.65 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c12 429 15 Browse 0 2 2058 34.69
Escherichia coli
56.51 Non-mobilizable ColRNAI_rep_cluster_1993 000024__JX133088 - - - - - - KU302803 0.00053260 78
AI3067_v1_c13 429 15 Browse 0 1 1921 1.69
Klebsiella pneumoniae
54.09 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c14 429 15 Browse 0 0 1415 2.84
Klebsiella pneumoniae
51.02 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c15 429 15 Browse 0 1 1229 0.97
Klebsiella pneumoniae
38.41 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c16 429 15 Browse 0 0 728 0.99
Klebsiella pneumoniae
64.15 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c17 429 15 Browse 0 0 504 0.94
Klebsiella pneumoniae
48.21 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c18 429 15 Browse 0 0 504 1.26
Klebsiella pneumoniae
47.62 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c19 429 15 Browse 0 0 393 2.83
Klebsiella pneumoniae
48.09 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c20 429 15 Browse 0 0 355 1.04
Klebsiella pneumoniae
58.59 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c21 429 15 Browse 0 0 353 0.82
Klebsiella pneumoniae
58.92 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c22 429 15 Browse 0 0 300 1.87
Klebsiella aerogenes, Klebsiella pneumoniae, Klebsiella variicola
60.33 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c23 429 15 Browse 0 0 298 0.91
Klebsiella pneumoniae
47.99 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c24 429 15 Browse 0 0 298 2.02
Klebsiella aerogenes, Klebsiella pneumoniae
46.31 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c25 429 15 Browse 0 0 276 0.98
Klebsiella pneumoniae
56.88 Non-mobilizable - - - - - - - - CP018359 0.12697400 201
AI3067_v1_c26 429 15 Browse 0 0 173 1.41
Klebsiella pneumoniae, Klebsiella quasipneumoniae
52.60 Non-mobilizable - - - - - - - - 1.00000000
AI3067_v1_c27 429 15 Browse 0 0 147 0.94
-
45.58 Non-mobilizable - - - - - - - - JX017308 0.18676100 110