Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario La Princesa (Madrid)
Hospital Admission Unit Internal medicine
Patient Sex M
Patient Age 89
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 405:gapA(2), infB(1), mdh(62), pgi(3), phoE(10), rpoB(4), tonB(110)
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 ≤0.25 S S
CEF >128 R R
AZT >128 R R
MEM 1 S S
IMI 2 I S
IMI-RELE 2 I S
ERT 4 R R
FOSFO <32 S S
GENTA 32 R R
TOBRA 8 I R
AMK 2 S S
CIP 0.5 I ATU
COLIS 16 NWT R
AI2921_v1
AI2921_v1

Sample 207 was assembled with Unicycler_v0.4.6 into 5 scaffolds, 5 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
AI2921_v1_c1 207 405 Browse 32 5032 5451465 1.00
Klebsiella pneumoniae
57.21 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP021942 0.21089700 1705
AI2921_v1_c2 207 405 Browse 28 222 224789 1.23
Klebsiella pneumoniae
52.36 Conjugative IncFII, IncFIB 000124__KP125893_00142, 000107__CP014778_00094 MOBF NC_021231_00058 MPF_F NC_021502_00150, 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, NC_019155_00032 - - KY271404 0.00291212 770
AI2921_v1_c3 207 405 Browse 1 83 63589 1.80
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
AI2921_v1_c4 207 405 Browse 0 50 40104 3.11
Escherichia coli
49.36 Conjugative IncN 000150__JQ996149 MOBF NC_020122_00018 MPF_T NC_020122_00019, NC_020122_00006, NC_020122_00009, NC_020122_00011, NC_020122_00012 - - CP018988 0.01258750 680
AI2921_v1_c5 207 405 Browse 0 5 4593 23.28
Salmonella enterica
50.45 Mobilizable ColRNAI_rep_cluster_1857 000008__AJ627566 MOBP NC_011082_00002 - - MOBP NZ_CP011065 CP011433 0.00053260 259