Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Vall d'Hebron (Barcelona)
Hospital Admission Unit Nephrology
Patient Sex M
Patient Age 85
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 101:gapA(2), infB(6), mdh(1), pgi(5), phoE(4), rpoB(1), tonB(6)
EDTA Assay (if any) Should have an OXA-48
PCR Result (if any) OXA-48 positive
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 16 R R
IMI 4 R I
IMI-RELE 2 I S
ERT 128 R R
FOSFO <32 S S
GENTA 32 R R
TOBRA 8 I R
AMK 1 S S
CIP >128 R R
COLIS <0.06 WT S
AI2801_v1
AI2801_v1

Sample 457 was assembled with Unicycler_v0.4.6 into 5 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
AI2801_v1_c1 457 101 Browse 30 5078 5462732 1.00
Klebsiella pneumoniae
57.04 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.21089700 1583
AI2801_v1_c2 457 101 Browse 39 191 181140 1.87
Klebsiella pneumoniae
51.17 Non-mobilizable IncFII, IncFIB, IncR 000107__CP014778_00094, 000204__CP008701_00115, 000127__CP009275 - - - - - - CP010390 0.03293570 770
AI2801_v1_c3 457 101 Browse 0 52 53149 2.51
Klebsiella pneumoniae
52.45 Non-mobilizable rep_cluster_1 000232__CP012429 - - - - - - CP018314 0.01345250 1705
AI2801_v1_c4 457 101 Browse 0 5 4052 14.90
Klebsiella pneumoniae
53.65 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006, NC_016979_00005 - - MOBP CP018941 CP018740 0.00026408 95
AI2801_v1_c5 457 101 Browse 0 2 2058 22.25
Klebsiella pneumoniae, Proteus mirabilis
56.51 Non-mobilizable ColRNAI_rep_cluster_1993 000024__JX133088 - - - - - - KU302803 0.00050801 78