Collection SERGAS
Isolation Year 2017
Isolation Location Hospital de Guadalajara (Guadalajara)
Hospital Admission Unit Primary care
Patient Sex M
Patient Age 60
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 >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 1 S S
ERT 1 I R
FOSFO >256 R R
GENTA 32 R R
TOBRA 16 R R
AMK 1 S S
CIP >128 R R
COLIS <0.06 WT S
AI2965_v1
AI2965_v1

Sample 300 was assembled with Unicycler_v0.4.6 into 10 scaffolds, 10 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
AI2965_v1_c1 300 307 Browse 28 4982 5373453 1.00
Klebsiella pneumoniae
57.42 Non-mobilizable - - - - - - - - CP007734 0.21953100 1586
AI2965_v1_c2 300 307 Browse 5 266 254193 1.30
Klebsiella pneumoniae
46.53 Conjugative rep_cluster_1150 000430__CP020850 MOBH NC_016980_00239 MPF_F NC_016980_00240, NC_018107_00101, NC_016980_00110, NC_016980_00109, NC_016980_00099, NC_018107_00235, NC_023911_00309 - - CP015501 0.02184990 1530
AI2965_v1_c3 300 307 Browse 31 220 226149 1.25
Klebsiella pneumoniae
52.48 Conjugative IncFIB 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 0.00285540 770
AI2965_v1_c4 300 307 Browse 1 83 63589 2.31
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
AI2965_v1_c5 300 307 Browse 0 3 3991 7.35
Klebsiella pneumoniae
44.35 Non-mobilizable ColRNAI_rep_cluster_1987, rep_cluster_2050 001473__CP024541, 000019__CP000651_00005 - - - - - - CP012558 0.08674340 195
AI2965_v1_c6 300 307 Browse 0 3 3670 9.87
Klebsiella pneumoniae
55.64 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_016979_00005 - - MOBP CP018941 CP018740 0.04838650 95
AI2965_v1_c7 300 307 Browse 0 3 3516 11.44
Enterobacter hormaechei
55.29 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 MOBP NC_001848_00006, NC_019986_00002 - - MOBP CP001388 CP008845 0.02330140 192
AI2965_v1_c8 300 307 Browse 0 2 2058 16.23
Escherichia coli
56.51 Non-mobilizable ColRNAI_rep_cluster_1993 000024__JX133088 - - - - - - KU302803 0.00043444 78
AI2965_v1_c9 300 307 Browse 0 1 1949 5.21
Salmonella enterica
50.03 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOBP KT693145 CP019997 0.03857870 141
AI2965_v1_c10 300 307 Browse 0 1 1551 16.13
Escherichia coli
51.64 Mobilizable ColRNAI_rep_cluster_1885 000013__DQ995351_00001 - - - - MOBP, MOB_unknown JN985534, AB027308 JN253636 0.04734430 414