Collection SERGAS
Isolation Year 2017
Isolation Location Hospital de Guadalajara (Guadalajara)
Hospital Admission Unit Emergencies
Patient Sex M
Patient Age 86
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation blood culture
Infection or Colonization I
Outbreak None
Genus/Species
Escherichia coli
Carbapenamase type(s) OXA-48
MLST 131:adk(53), fumC(40), gyrB(47), icd(13), mdh(36), purA(28), recA(29)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper >256 R R
P/T 128 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 0.5 S S
IMI 2 I S
IMI-RELE 1 S S
ERT 128 R R
FOSFO <32 S S
GENTA 1 S S
TOBRA 0.5 S S
AMK 4 S S
CIP 128 R R
COLIS 0.12 WT S
AI2963_v1
AI2963_v1

Sample 298 was assembled with Unicycler_v0.4.6 into 13 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
AI2963_v1_c1 298 131 Browse 73 4812 5105603 1.00
Escherichia coli
50.83 Mobilizable - - MOBP NC_021576_00050, NC_011416_00039 - - - - CP005931 0.21089700 969
AI2963_v1_c2 298 131 Browse 1 88 76491 0.92
Acinetobacter baumannii, Salmonella enterica
50.98 Conjugative IncFII, IncFIIA 000136__AP014877_00014, 000121__CP024805 MOBF NC_011980_00044 MPF_F NC_010719_00097, NC_017639_00100, NC_007675_00027, NC_013437_00116, NC_017639_00094, NC_019094_00090, NC_010409_00124, NC_022651_00077, 08-5333_00200, NC_018966_00040, NC_019094_00068, NC_010719_00096 MOBF NZ_CP012164 CP012632 0.02213350 546
AI2963_v1_c3 298 131 Browse 1 80 68062 1.20
Escherichia coli
50.92 Non-mobilizable ColRNAI_rep_cluster_1291, IncFIB, IncFIA 000094__NZ_CP015070_00117, 000096__NC_019117_00097, 000002__NC_009781 - - - - - - CP021180 0.02184990 1554
AI2963_v1_c4 298 131 Browse 0 6 5167 15.43
Escherichia coli
47.51 Mobilizable ColRNAI_rep_cluster_1291 000001__EU090225_00001 MOBQ NC_019783_00003 - - - - CP018967 0.00021574 502
AI2963_v1_c5 298 131 Browse 0 3 4064 17.89
Escherichia coli
51.53 Mobilizable rep_cluster_1785 001211__AP017616_00002 MOBQ NC_011411_00002 - - MOBQ NC_013327, NC_009791 CP019024 0.00110890 469
AI2963_v1_c6 298 131 Browse 0 4 3670 9.69
Klebsiella pneumoniae
55.64 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006 - - MOBP CP018941 CP018740 0.04910000 95
AI2963_v1_c7 298 131 Browse 0 2 1949 8.96
Salmonella enterica
50.03 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOBP KT693145 CP019997 0.03781170 141
AI2963_v1_c8 298 131 Browse 0 2 1902 71.88
Escherichia coli
44.11 Mobilizable ColRNAI_rep_cluster_1885 000013__DQ995351_00001 - - - - MOBP NC_018997 JN253636 0.12571500 414
AI2963_v1_c9 298 131 Browse 0 1 1783 22.19
Escherichia coli
56.87 Non-mobilizable ColRNAI_rep_cluster_1993 000024__JX133088 - - - - - - CP016511 0.03009130 60
AI2963_v1_c10 298 131 Browse 0 3 1225 0.89
Escherichia coli
52.24 Non-mobilizable - - - - - - - - CP022228 0.15914600 1140
AI2963_v1_c11 298 131 Browse 0 0 322 1.17
Klebsiella aerogenes
54.97 Non-mobilizable - - - - - - - - 1.00000000
AI2963_v1_c12 298 131 Browse 0 0 254 2.92
Escherichia coli
62.20 Non-mobilizable - - - - - - - - 1.00000000
AI2963_v1_c13 298 131 Browse 0 0 149 1.79
Escherichia coli, Salmonella enterica
59.73 Non-mobilizable - - - - - - - - CP022228 0.26302200 1140