Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Univeristario de Bellvitge (Barcelona)
Hospital Admission Unit Urology
Patient Sex M
Patient Age 62
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) 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 1 S S
IMI 0.5 S S
IMI-RELE 0.25 S S
ERT 8 R R
FOSFO <32 S S
GENTA 0.5 S S
TOBRA 2 S S
AMK 1 S S
CIP 64 R R
COLIS 0.12 WT S
AI2771_v2
AI2771_v2

Sample 410 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
AI2771_v2_c1 410 101 Browse 26 5062 5441256 1.00 None 56.96 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.21089700 1583
AI2771_v2_c2 410 101 Browse 5 119 117271 1.08 None 50.09 Non-mobilizable IncFII, IncFIB 000107__CP014778_00094, 000127__CP009275 - - - - - - CP009879 0.03424770 770
AI2771_v2_c3 410 101 Browse 1 144 112360 2.20 None 51.73 Conjugative IncN, IncL/M 000148__NC_021488_00028, 000155__CP018649 MOBF, MOBP NC_004464_00056, NC_015599_00019, NC_021576_00050 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, NC_009131_00030, NC_022375_00024 MOBF NZ_CP012928 LN864821 0.02597670 681
AI2771_v2_c4 410 101 Browse 0 54 53243 2.69 None 52.42 Non-mobilizable rep_cluster_1 000232__CP012429 - - - - - - CP018314 0.01350160 1705
AI2771_v2_c5 410 101 Browse 0 3 3516 22.47 None 55.23 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006, NC_019986_00002 - - MOBP CP001388 CP008845 0.02249270 192
AI2771_v2_c6 410 101 Browse 0 2 2058 34.88 None 56.51 Non-mobilizable ColRNAI_rep_cluster_1993 000024__JX133088 - - - - - - KU302803 0.00058191 78