Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Mutua de Terrassa (Terrassa)
Hospital Admission Unit Emergencies
Patient Sex F
Patient Age 86
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 >128 R R
CAZ >128 R R
CAZ-AVI 4 S S
CEF >128 R R
AZT >128 R R
MEM 64 R R
IMI 16 R R
IMI-RELE 8 R R
ERT 64 R R
FOSFO 64 S R
GENTA >256 R R
TOBRA >256 R R
AMK >128 R R
CIP 64 R R
COLIS 0.12 WT S
AI2855_v1
AI2855_v1

Sample 105 was assembled with Unicycler_v0.4.6 into 25 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
AI2855_v1_c1 105 147 Browse 32 4878 5283899 1.00
Klebsiella pneumoniae
57.39 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.19729200 1583
AI2855_v1_c2 105 147 Browse 0 103 102402 0.85
Klebsiella pneumoniae
52.73 Conjugative IncFII, rep_cluster_1418 000759__NC_013950_00034, 000118__KJ958926_00047 MOBP NC_021198_00256 MPF_I NC_021198_00230, NC_021198_00234, NC_021198_00235, NC_021198_00236, NC_021198_00238, NC_021198_00239, NC_021198_00240, NC_021198_00243, NC_021198_00249 - - CP021758 0.00427048 1713
AI2855_v1_c3 105 147 Browse 9 69 66590 1.35
Klebsiella pneumoniae
52.52 Mobilizable IncR 000204__CP008701_00115 MOBP NC_021576_00050 - - - - CP021761 0.00604372 727
AI2855_v1_c4 105 147 Browse 1 83 63589 1.64
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
AI2855_v1_c5 105 147 Browse 0 52 54404 3.38
Klebsiella pneumoniae
53.17 Non-mobilizable rep_cluster_1 000232__CP012429 - - - - - - CP021760 0.00000000 1705
AI2855_v1_c6 105 147 Browse 0 6 7926 10.89
-, Citrobacter freundii, Enterobacter cloacae, Enterobacter hormaechei, Escherichia coli
48.20 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP000651 0.01849650 206
AI2855_v1_c7 105 147 Browse 0 6 7836 28.06
Escherichia coli
48.32 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - EU932690 0.01683910 205
AI2855_v1_c8 105 147 Browse 0 4 4715 18.32
Klebsiella pneumoniae
41.12 Mobilizable ColRNAI_rep_cluster_1857 000008__AJ627566 - - - - MOBP, MOB_unknown NC_019986, AP017298 DQ286390 0.00254680 33
AI2855_v1_c9 105 147 Browse 0 2 3892 1.82
Klebsiella pneumoniae
48.66 Non-mobilizable - - - - - - - - KJ541070 0.06398740 628
AI2855_v1_c10 105 147 Browse 0 2 2674 9.67
Klebsiella pneumoniae
31.19 Non-mobilizable - - - - - - - - 1.00000000
AI2855_v1_c11 105 147 Browse 2 3 2359 1.88
Klebsiella pneumoniae
67.91 Non-mobilizable - - - - - - - - KR059864 0.10155100 2719
AI2855_v1_c12 105 147 Browse 0 3 2111 1.90
Klebsiella pneumoniae
53.91 Non-mobilizable - - - - - - - - AB759690 0.12214000 2625
AI2855_v1_c13 105 147 Browse 0 1 1975 1.72
Escherichia coli, Klebsiella pneumoniae
44.86 Non-mobilizable - - - - - - - - AB759690 0.11676000 2625
AI2855_v1_c14 105 147 Browse 0 1 1840 0.85
-, Citrobacter freundii, Escherichia coli, Klebsiella pneumoniae, Klebsiella quasipneumoniae
55.76 Non-mobilizable - - - - - - - - JQ319768 0.03923310 607
AI2855_v1_c15 105 147 Browse 1 2 1406 1.91
Klebsiella pneumoniae, Pseudomonas aeruginosa
66.57 Non-mobilizable - - - - - - - - CP011839 0.15661900 727
AI2855_v1_c16 105 147 Browse 0 1 1003 1.95
-
58.92 Non-mobilizable - - - - - - - - KF998104 0.10848700 557
AI2855_v1_c17 105 147 Browse 0 1 771 1.74
-
62.65 Non-mobilizable - - - - - - - - KC249996 0.06236750 558
AI2855_v1_c18 105 147 Browse 0 1 645 1.95
-
62.64 Non-mobilizable - - - - - - - - NC_010500 0.10015200 571
AI2855_v1_c19 105 147 Browse 1 1 622 1.70
Klebsiella pneumoniae
54.50 Non-mobilizable - - - - - - - - JN596279 0.09038310 570
AI2855_v1_c20 105 147 Browse 0 0 584 1.74
Enterobacter hormaechei, Escherichia fergusonii, Klebsiella aerogenes, Klebsiella pneumoniae
56.85 Non-mobilizable - - - - - - - - KR259133 0.06900610 739
AI2855_v1_c21 105 147 Browse 1 1 496 1.74
-
45.56 Non-mobilizable - - - - - - - - NC_019984 0.14200900 566
AI2855_v1_c22 105 147 Browse 0 0 239 4.03
Klebsiella pneumoniae, Pseudomonas aeruginosa
64.44 Non-mobilizable - - - - - - - - KR059864 0.13097900 2719
AI2855_v1_c23 105 147 Browse 0 0 190 1.93
-
66.32 Non-mobilizable - - - - - - - - NC_010500 0.12449100 571
AI2855_v1_c24 105 147 Browse 0 0 155 1.82
-
62.58 Non-mobilizable - - - - - - - - KJ631730 0.19173100 954
AI2855_v1_c25 105 147 Browse 0 0 153 1.89
-
50.33 Non-mobilizable - - - - - - - - KF998104 0.19173100 557