Collection SERGAS
Isolation Year 2017
Isolation Location Hospital de Guadalajara (Guadalajara)
Hospital Admission Unit Primary care
Patient Sex F
Patient Age 83
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 0.25 S S
CAZ 0.25 S S
CAZ-AVI ≤0.25 S S
CEF 0.5 S S
AZT 0.12 S S
MEM 4 R I
IMI 4 R I
IMI-RELE 4 R R
ERT 0.12 S S
FOSFO <32 S S
GENTA 32 R R
TOBRA 16 R R
AMK 0.25 S S
CIP 0.12 S S
COLIS <0.06 WT S
AI2975_v1
AI2975_v1

Sample 312 was assembled with Unicycler_v0.4.6 into 9 scaffolds, 9 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
AI2975_v1_c1 312 307 Browse 28 4980 5372798 1.00
Klebsiella pneumoniae
57.43 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI2975_v1_c2 312 307 Browse 40 506 492580 1.69
Klebsiella pneumoniae
49.04 Conjugative IncFII, IncFIB, rep_cluster_1150 000124__KP125893_00142, 000107__CP014778_00094, 000430__CP020850 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_016980_00110, NC_016980_00109, NC_016980_00099, NC_018107_00235, NC_023911_00309, NC_021502_00131, NC_019155_00032 - - CP006799 0.02970770 1530
AI2975_v1_c3 312 307 Browse 1 83 63589 2.89
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
AI2975_v1_c4 312 307 Browse 0 3 3991 9.96
Klebsiella pneumoniae
44.35 Non-mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - - - CP012558 0.08826370 195
AI2975_v1_c5 312 307 Browse 0 3 3670 15.60
Escherichia coli
55.64 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_016979_00005 - - MOBP CP018941 CP018740 0.04821050 95
AI2975_v1_c6 312 307 Browse 0 3 3516 18.80
Enterobacter hormaechei
55.29 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006 - - MOBP CP001388 CP008845 0.02352650 192
AI2975_v1_c7 312 307 Browse 0 2 2058 23.94
Klebsiella pneumoniae, Proteus mirabilis
56.51 Non-mobilizable ColRNAI_rep_cluster_1993 000024__JX133088 - - - - - - KU302803 0.00043444 78
AI2975_v1_c8 312 307 Browse 0 1 1949 8.02
Salmonella enterica
50.03 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOBP KT693145 CP019997 0.03781170 141
AI2975_v1_c9 312 307 Browse 0 1 1551 20.73
Escherichia coli
51.64 Mobilizable ColRNAI_rep_cluster_1885 000013__DQ995351_00001 - - - - MOBP, MOB_unknown JN985534, AB027308 JN253636 0.04734430 414