Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Clínic (Barcelona)
Hospital Admission Unit Gastroenterology
Patient Sex M
Patient Age 91
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 307:gapA(4), infB(1), mdh(2), pgi(52), phoE(1), rpoB(1), tonB(7)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper >256 R R
P/T 128 R R
CTX >128 R R
CAZ >128 R R
CAZ-AVI 2 S S
CEF >128 R R
AZT >128 R R
MEM 32 R R
IMI 32 R R
IMI-RELE 32 R R
ERT 128 R R
FOSFO 64 S R
GENTA 8 I R
TOBRA 2 S S
AMK 4 S S
CIP 16 R R
COLIS 0.12 WT S
AI2847_v1
AI2847_v1

Sample 96 was assembled with Unicycler_v0.4.6 into 6 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
AI2847_v1_c1 96 307 Browse 30 4966 5375785 1.00
Klebsiella pneumoniae
57.42 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI2847_v1_c2 96 307 Browse 23 202 190829 1.42
Klebsiella pneumoniae
52.69 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 - - CP008930 0.00694555 769
AI2847_v1_c3 96 307 Browse 6 64 64150 2.10
Klebsiella pneumoniae
48.92 Non-mobilizable IncR, IncFIA 000204__CP008701_00115, 000093__KX023259_00112 - - - - - - CP009116 0.01730060 726
AI2847_v1_c4 96 307 Browse 1 48 34959 9.34
Klebsiella pneumoniae
54.53 Mobilizable ColRNAI_rep_cluster_1857 000003__NC_002119_00001 MOBC NC_009793_00003 - - - - KX524525 0.02492080 681
AI2847_v1_c5 96 307 Browse 0 5 6728 8.06
Escherichia coli
45.76 Mobilizable ColRNAI_rep_cluster_1857, rep_cluster_2050 000012__CP000801, 001473__CP024541 - - - - MOBP CP018941 CP012489 0.06715640 200
AI2847_v1_c6 96 307 Browse 0 3 4709 11.16
Klebsiella pneumoniae
43.36 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP018358 0.06371240 204