Collection SERGAS
Isolation Year 2017
Isolation Location Hospital de Guadalajara (Guadalajara)
Hospital Admission Unit Primary care
Patient Sex F
Patient Age 64
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 256 R R
CTX 0.5 S S
CAZ 1 S S
CAZ-AVI ≤0.25 S S
CEF 1 S S
AZT 2 S I
MEM 0.5 S S
IMI 2 I S
IMI-RELE 2 I S
ERT 0.25 S S
FOSFO >256 R R
GENTA ≤0.25 S S
TOBRA ≤0.25 S S
AMK 0.5 S S
CIP 4 R R
COLIS <0.06 WT S
AI3041_v1
AI3041_v1

Sample 313 was assembled with Unicycler_v0.4.6 into 8 scaffolds, 8 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
AI3041_v1_c1 313 307 Browse 28 4971 5372539 1.00
Klebsiella pneumoniae
57.43 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI3041_v1_c2 313 307 Browse 38 360 347740 1.16
Klebsiella pneumoniae
50.25 Conjugative IncFIB 000107__CP014778_00094 MOBF, MOBH NC_021231_00058, NC_016980_00239 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_016980_00240, NC_018107_00101, NC_021502_00131, NC_019155_00032 - - KY271404 0.02061260 770
AI3041_v1_c3 313 307 Browse 0 3 3991 8.35
Klebsiella pneumoniae
44.35 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP012558 0.08775060 195
AI3041_v1_c4 313 307 Browse 0 3 3670 8.15
Klebsiella pneumoniae
55.64 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006 - - MOBP CP018941 CP018740 0.04803540 95
AI3041_v1_c5 313 307 Browse 0 3 3516 12.02
Enterobacter hormaechei
55.29 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006 - - MOBP CP001388 CP008845 0.02345130 192
AI3041_v1_c6 313 307 Browse 0 2 2058 19.40
Klebsiella pneumoniae
56.51 Non-mobilizable ColRNAI_rep_cluster_1993 000024__JX133088 - - - - - - KU302803 0.00060662 78
AI3041_v1_c7 313 307 Browse 0 1 1949 7.14
Salmonella enterica
50.03 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOBP KT693145 CP019997 0.03806520 141
AI3041_v1_c8 313 307 Browse 0 0 1551 17.50
Escherichia coli
51.64 Mobilizable ColRNAI_rep_cluster_1885 000013__DQ995351_00001 - - - - MOBP, MOB_unknown JN985534, AB027308 JN253636 0.04734430 414