Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Lucus Augusti (Lugo)
Hospital Admission Unit Internal medicine
Patient Sex M
Patient Age 69
Community/Hospital/LTCF acquisition Hospital
Biological Sample of Isolation sputum
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 0.5 S S
CEF >128 R R
AZT >128 R R
MEM 16 R R
IMI 2 I S
IMI-RELE 2 I S
ERT 128 R R
FOSFO <32 S S
GENTA >128 R R
TOBRA >256 R R
AMK >128 R R
CIP 128 R R
COLIS <0.06 WT S
AN2352_v1
AN2352_v1

Sample 487 was assembled with Unicycler_v0.4.6 into 7 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
AN2352_v1_c1 487 147 Browse 32 4988 5363534 1.00
Klebsiella pneumoniae
57.41 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.19729200 1583
AN2352_v1_c2 487 147 Browse 4 111 108109 1.09
Klebsiella pneumoniae
52.95 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 0.00235330 1713
AN2352_v1_c3 487 147 Browse 9 70 67089 1.40
Klebsiella pneumoniae
52.42 Mobilizable IncR 000204__CP008701_00115 MOBP NC_021576_00050 - - - - CP021761 0.00607761 727
AN2352_v1_c4 487 147 Browse 1 84 65498 2.70
Klebsiella pneumoniae
51.43 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 - - KX523901 0.00139189 681
AN2352_v1_c5 487 147 Browse 0 55 55200 4.44
Klebsiella pneumoniae
53.30 Non-mobilizable rep_cluster_3 001607__CP009878 - - - - - - CP021760 0.00920555 1705
AN2352_v1_c6 487 147 Browse 0 3 4715 28.71
Klebsiella pneumoniae
41.12 Mobilizable ColRNAI_rep_cluster_1857 000008__AJ627566 - - - - MOBP, MOB_unknown NC_019986, AP017298 DQ286390 0.00240836 33
AN2352_v1_c7 487 147 Browse 0 1 2674 23.70
Klebsiella pneumoniae
31.19 Non-mobilizable - - - - - - - - 1.00000000