Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Univeristario de Bellvitge (Barcelona)
Hospital Admission Unit Nephrology
Patient Sex F
Patient Age 35
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 8 R I
IMI 2 I S
IMI-RELE 0.5 S S
ERT 64 R R
FOSFO >256 R R
GENTA >256 R R
TOBRA >256 R R
AMK >128 R R
CIP 128 R R
COLIS <0.06 WT S
AI2998_v1
AI2998_v1

Sample 413 was assembled with Unicycler_v0.4.6 into 9 scaffolds, 9 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
AI2998_v1_c1 413 147 Browse 32 4905 5294552 1.00
Klebsiella pneumoniae
57.37 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.19729200 1583
AI2998_v1_c2 413 147 Browse 0 108 103689 1.61
Klebsiella pneumoniae
52.48 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 - - CP015502 0.00495906 1713
AI2998_v1_c3 413 147 Browse 13 84 83975 2.38
Klebsiella pneumoniae
53.60 Mobilizable IncR 000204__CP008701_00115 MOBP NC_021576_00050 - - - - CP021761 0.01277670 727
AI2998_v1_c4 413 147 Browse 1 83 63589 2.79
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
AI2998_v1_c5 413 147 Browse 0 54 55181 2.23
Klebsiella pneumoniae
53.18 Non-mobilizable rep_cluster_1 000232__CP012429 - - - - - - CP021760 0.00040999 1705
AI2998_v1_c6 413 147 Browse 0 8 7926 5.96
-, 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 0.01801080 206
AI2998_v1_c7 413 147 Browse 0 4 4715 7.08
Klebsiella pneumoniae
41.12 Mobilizable ColRNAI_rep_cluster_1857 000008__AJ627566 - - - - MOBP, MOB_unknown NC_019986, AP017298 DQ286390 0.00263042 33
AI2998_v1_c8 413 147 Browse 0 4 4167 13.41
Klebsiella pneumoniae
41.49 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - EU932690 0.00038558 205
AI2998_v1_c9 413 147 Browse 0 2 2674 4.17
Klebsiella pneumoniae
31.19 Non-mobilizable - - - - - - - - 1.00000000