Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Univeristario de Bellvitge (Barcelona)
Hospital Admission Unit Emergencies
Patient Sex M
Patient Age 77
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation wound
Infection or Colonization I
Outbreak None
Genus/Species
Escherichia coli
Carbapenamase type(s) OXA-48
MLST 11106:adk(6), fumC(466), gyrB(32), icd(26), mdh(9), purA(8), recA(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 0.5 S S
CEF >128 R R
AZT >128 R R
MEM ≤0.12 S S
IMI 0.25 S S
IMI-RELE ≤0.12 S S
ERT 2 R R
FOSFO <32 S S
GENTA 0.5 S S
TOBRA 1 S S
AMK 32 I R
CIP 16 R R
COLIS <0.06 WT S
AI2994_v1
AI2994_v1

Sample 405 was assembled with Unicycler_v0.4.6 into 5 scaffolds, 3 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
AI2994_v1_c1 405 11106 Browse 62 4580 4933882 1.00
Escherichia coli
50.68 Non-mobilizable - - - - - - - - CP010208 0.17817300 2912
AI2994_v1_c2 405 11106 Browse 0 175 169171 1.04
Escherichia coli
48.46 Conjugative IncFII, IncFIB, IncFIIA 000136__AP014877_00014, 000121__CP024805, 000095__NZ_CP014273_00094 MOBF NC_017627_00068 MPF_F NC_008460_00107, NC_010719_00097, NC_019037_00027, NC_007675_00027, NC_013437_00116, NC_019094_00090, NC_010409_00124, NC_022651_00077, NC_019094_00068, NC_017054_00096, NC_017630_00031 MOBP NC_008697, NC_013176 CP010222 0.01843520 1356
AI2994_v1_c3 405 11106 Browse 1 86 63589 1.57
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
AI2994_v1_c4 405 11106 Browse 0 16 9432 10.09
Escherichia coli
41.07 Non-mobilizable - - - - - - - - AY271828 0.29598100 817
AI2994_v1_c5 405 11106 Browse 0 7 6039 18.27
Escherichia coli
49.03 Mobilizable ColRNAI_rep_cluster_1291 000001__EU090225_00001 MOBQ NC_019783_00003 - - - - CP010210 0.02263780 223