Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario La Princesa (Madrid)
Hospital Admission Unit Infectious diseases
Patient Sex M
Patient Age 92
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 11:gapA(3), infB(3), mdh(1), pgi(1), phoE(1), rpoB(1), tonB(4)
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 1 S S
CEF >128 R R
AZT >128 R R
MEM 16 R R
IMI 16 R R
IMI-RELE 16 R R
ERT 16 R R
FOSFO 32 S S
GENTA ≤0.25 S S
TOBRA ≤0.25 S S
AMK 0.5 S S
CIP 32 R R
COLIS <0.06 WT S
AI2914_v1
AI2914_v1

Sample 198 was assembled with Unicycler_v0.4.6 into 8 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
AI2914_v1_c1 198 11 Browse 34 5068 5381555 1.00
Klebsiella pneumoniae
57.38 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.20360400 1583
AI2914_v1_c2 198 11 Browse 9 248 242086 1.47
Klebsiella pneumoniae
46.26 Conjugative IncH, rep_cluster_1150 000430__CP020850, 000137__CP017986_00041 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 - - CP012754 0.01982130 1530
AI2914_v1_c3 198 11 Browse 20 155 145293 1.73
Klebsiella pneumoniae
52.31 Conjugative IncFII, IncFIB 000107__CP014778_00094, 000113__CP022035, 000132__HG969996 MOBF NC_021231_00058 MPF_F NC_021502_00150, NC_019165_00034, NC_021654_00016, NC_022609_00081, NC_014312_00128, NC_023332_00154, NC_014312_00118, NC_014312_00116, NC_021502_00131, NC_019389_00080, NC_019155_00032, NC_021654_00004 - - CP020109 0.00378594 769
AI2914_v1_c4 198 11 Browse 10 86 86446 4.16
Klebsiella pneumoniae
53.65 Conjugative IncR 000204__CP008701_00115 MOBF, MOBP NC_015599_00019, NC_021576_00050 MPF_T NC_022375_00024 MOBF NZ_CP012928 CP011990 0.02970770 767
AI2914_v1_c5 198 11 Browse 0 2 2308 1.62
Klebsiella pneumoniae
49.00 Non-mobilizable - - - - - - - - JF785550 0.09378290 455
AI2914_v1_c6 198 11 Browse 1 1 1040 1.63
-
43.56 Non-mobilizable - - - - - - - - KT207463 0.03694090 1073
AI2914_v1_c7 198 11 Browse 0 1 736 3.35
-
52.85 Non-mobilizable - - - - - - - - NC_010064 0.03347510 742
AI2914_v1_c8 198 11 Browse 0 0 179 1.62
-
48.04 Non-mobilizable - - - - - - - - CP011586 0.15914600 607