Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Univeristario de Bellvitge (Barcelona)
Hospital Admission Unit Nephrology
Patient Sex M
Patient Age 57
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation wound
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 1 S S
CEF >128 R R
AZT >128 R R
MEM 16 R R
IMI 4 R I
IMI-RELE 2 I S
ERT 64 R R
FOSFO 32 S S
GENTA >256 R R
TOBRA >256 R R
AMK >128 R R
CIP 8 R R
COLIS 0.25 WT S
AI2769_v1
AI2769_v1

Sample 407 was assembled with Unicycler_v0.4.6 into 13 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
AI2769_v1_c1 407 147 Browse 32 4880 5277742 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
AI2769_v1_c2 407 147 Browse 4 122 121082 1.19
Klebsiella pneumoniae
53.24 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 0.00004769 1713
AI2769_v1_c3 407 147 Browse 1 83 63589 1.97
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
AI2769_v1_c4 407 147 Browse 0 52 53996 4.63
Klebsiella pneumoniae
52.92 Non-mobilizable rep_cluster_3 001607__CP009878 - - - - - - CP021760 0.01335470 1705
AI2769_v1_c5 407 147 Browse 3 34 32787 2.50
Klebsiella pneumoniae
53.07 Mobilizable IncR 000204__CP008701_00115 MOBP NC_021576_00050 - - - - JX424614 0.02293060 727
AI2769_v1_c6 407 147 Browse 0 6 7926 11.79
Klebsiella sp.
48.21 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP000651 0.01837410 206
AI2769_v1_c7 407 147 Browse 0 4 4715 19.44
Klebsiella pneumoniae
41.12 Mobilizable ColRNAI_rep_cluster_1857 000008__AJ627566 - - - - MOBP, MOB_unknown NC_019986, AP017298 DQ286390 0.00254680 33
AI2769_v1_c8 407 147 Browse 0 3 4167 38.12
Klebsiella pneumoniae
41.49 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - EU932690 0.00043444 205
AI2769_v1_c9 407 147 Browse 2 3 3448 2.44
Klebsiella pneumoniae
48.29 Non-mobilizable - - - - - - - - JN596279 0.11019300 570
AI2769_v1_c10 407 147 Browse 1 3 2480 2.44
Klebsiella pneumoniae, Pseudomonas aeruginosa
65.32 Non-mobilizable - - - - - - - - NC_010500 0.08878330 571
AI2769_v1_c11 407 147 Browse 0 3 2470 2.53
Klebsiella michiganensis
54.94 Non-mobilizable - - - - - - - - NC_010064 0.05332170 742
AI2769_v1_c12 407 147 Browse 0 1 1003 2.50
-
58.92 Non-mobilizable - - - - - - - - KF998104 0.10848700 557
AI2769_v1_c13 407 147 Browse 0 0 584 2.44
Acinetobacter baumannii
56.68 Non-mobilizable - - - - - - - - KR259133 0.07062020 739