Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Clínic (Barcelona)
Hospital Admission Unit Emergencies
Patient Sex F
Patient Age 86
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 392:gapA(3), infB(4), mdh(6), pgi(1), phoE(7), rpoB(4), tonB(40)
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 S S
CAZ-AVI 1 S S
CEF >128 R R
AZT >128 R R
MEM 16 R R
IMI 16 R R
IMI-RELE 8 R R
ERT 64 R R
FOSFO >256 R R
GENTA ≤0.25 S S
TOBRA ≤0.25 S S
AMK 64 R R
CIP 8 R R
COLIS 0.25 WT S
AH0326_v1
AH0326_v1

Sample 91T was assembled with Unicycler_v0.4.6 into 7 scaffolds, 7 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
AH0326_v1_c1 91T 392 Browse 30 4933 5311914 1.00
Klebsiella pneumoniae
57.43 Non-mobilizable - - - - - - - - CP007734 0.20360400 1586
AH0326_v1_c2 91T 392 Browse 13 355 343538 1.83
Klebsiella pneumoniae
48.53 Conjugative rep_cluster_1150 000430__CP020850 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 - - CP015501 0.02398290 1530
AH0326_v1_c3 91T 392 Browse 24 182 166085 1.64
Klebsiella pneumoniae
51.08 Conjugative IncFII, IncFIB 000124__KP125893_00142, 000107__CP014778_00094 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_014312_00141, NC_019165_00034, NC_021654_00016, NC_011281_00082, NC_022609_00081, NC_014312_00128, NC_019389_00068, NC_023332_00154, NC_014312_00118, NC_014312_00116 - - CP010390 0.00436283 770
AH0326_v1_c4 91T 392 Browse 1 83 63589 2.15
Escherichia coli, 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
AH0326_v1_c5 91T 392 Browse 0 7 5598 16.98
Klebsiella pneumoniae
51.18 Mobilizable ColRNAI_rep_cluster_1857 000012__CP000801 MOBP NC_009794_00003 - - MOBP NZ_CP008718 CP000824 0.00476862 117
AH0326_v1_c6 91T 392 Browse 0 4 4167 11.81
Klebsiella pneumoniae
41.49 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - EU932690 0.00040999 205
AH0326_v1_c7 91T 392 Browse 0 2 2058 38.26
Klebsiella pneumoniae, Proteus mirabilis
56.51 Non-mobilizable ColRNAI_rep_cluster_1993 000024__JX133088 - - - - - - KU302803 0.00043444 78