Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Valencia Tres cruces (Valencia)
Hospital Admission Unit Internal medicine
Patient Sex M
Patient Age 81
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation sputum
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 >256 R R
CTX 128 R R
CAZ 128 R R
CAZ-AVI 1 S S
CEF 16 R R
AZT 64 R R
MEM 0.5 S S
IMI 0.5 S S
IMI-RELE 0.25 S S
ERT 1 I R
FOSFO 256 R R
GENTA 32 R R
TOBRA 16 R R
AMK 1 S S
CIP 16 R R
COLIS <0.06 WT S
AI3009_v1
AI3009_v1

Sample 444 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
AI3009_v1_c1 444 307 Browse 29 4987 5379240 1.00
Klebsiella pneumoniae
57.41 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI3009_v1_c2 444 307 Browse 15 303 305222 1.18
Klebsiella pneumoniae
47.78 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 0.01886750 1530
AI3009_v1_c3 444 307 Browse 25 181 171349 1.05
Klebsiella pneumoniae
51.17 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, NC_021502_00131 - - CP010390 0.00246360 770
AI3009_v1_c4 444 307 Browse 1 84 63589 1.66
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
AI3009_v1_c5 444 307 Browse 0 4 3991 9.38
Klebsiella pneumoniae
44.35 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP012558 0.08674340 195