Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario La Princesa (Madrid)
Hospital Admission Unit Vascular surgery
Patient Sex M
Patient Age 55
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 11:gapA(3), infB(3), mdh(1), pgi(1), phoE(1), rpoB(1), tonB(4)
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 1 S S
IMI 1 S S
IMI-RELE 0.5 S S
ERT 2 R R
FOSFO 64 S R
GENTA 128 R R
TOBRA 128 R R
AMK 8 S S
CIP >128 R R
COLIS 0.12 WT S
AI2919_v1
AI2919_v1

Sample 205 was assembled with Unicycler_v0.4.6 into 11 scaffolds, 4 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
AI2919_v1_c1 205 11 Browse 33 5088 5390599 1.00
Klebsiella pneumoniae
57.43 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_013284_00016 - - CP015754 0.20360400 1583
AI2919_v1_c2 205 11 Browse 4 210 203740 1.33
Klebsiella pneumoniae
44.60 Conjugative IncH, rep_cluster_1150 000430__CP020850, 000137__CP017986_00041 MOBH NC_016980_00239 MPF_F NC_016980_00240, NC_018107_00101, NC_016980_00110, NC_016980_00109, NC_016980_00099, NC_018107_00235, NC_023911_00309 - - CP018339 0.01661170 1530
AI2919_v1_c3 205 11 Browse 26 176 168528 1.47
Klebsiella pneumoniae
52.26 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 - - CP020109 0.00227104 769
AI2919_v1_c4 205 11 Browse 7 55 52407 3.02
Klebsiella pneumoniae
50.45 Conjugative IncR 000204__CP008701_00115 MOBF, MOBP NC_015599_00019, NC_021576_00050 MPF_T NC_022375_00024 MOBF NZ_CP012928 CP014299 0.02647880 730
AI2919_v1_c5 205 11 Browse 0 1 1675 1.47
Klebsiella aerogenes, Klebsiella oxytoca, Klebsiella pneumoniae
40.06 Non-mobilizable - - - - - - - - KU295132 0.16182200 1588
AI2919_v1_c6 205 11 Browse 0 2 1506 5.31
Escherichia coli
50.20 Non-mobilizable ColRNAI_rep_cluster_1885 000013__DQ995351_00001 - - - - - - JN253636 0.09813750 414
AI2919_v1_c7 205 11 Browse 0 1 1294 1.47
Klebsiella oxytoca, Klebsiella pneumoniae, Serratia marcescens
43.20 Non-mobilizable - - - - - - - - KP987218 0.15914600 1588
AI2919_v1_c8 205 11 Browse 0 1 1196 1.47
Enterobacter kobei, Klebsiella pneumoniae
53.60 Non-mobilizable - - - - - - - - MF543359 0.07479850 721
AI2919_v1_c9 205 11 Browse 0 0 357 1.47
-
55.46 Non-mobilizable - - - - - - - - NC_010064 0.06263250 742
AI2919_v1_c10 205 11 Browse 0 1 356 1.47
-
51.12 Non-mobilizable - - - - - - - - NC_010064 0.06158390 742
AI2919_v1_c11 205 11 Browse 0 0 135 1.47
-, Serratia marcescens
49.63 Non-mobilizable - - - - - - - - 1.00000000