Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Son de Espases (Palma de Mallorca)
Hospital Admission Unit ICU
Patient Sex M
Patient Age 83
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation blood culture
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) VIM-1
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 >256 R R
CAZ-AVI 256 R R
CEF 128 R R
AZT 32 R R
MEM 4 R I
IMI 4 R I
IMI-RELE 4 R R
ERT 2 R R
FOSFO <32 S S
GENTA 4 S R
TOBRA 16 R R
AMK 8 S S
CIP 64 R R
COLIS 0.12 WT S
AI2660_v1
AI2660_v1

Sample 233 was assembled with Unicycler_v0.4.6 into 5 scaffolds, 5 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
AI2660_v1_c1 233 11 Browse 31 5090 5411196 1.00
Klebsiella pneumoniae
57.41 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.20360400 1583
AI2660_v1_c2 233 11 Browse 25 172 173778 1.35
Klebsiella pneumoniae
52.40 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 - - CP020838 0.00417861 767
AI2660_v1_c3 233 11 Browse 18 55 45455 2.25
Klebsiella pneumoniae
54.54 Mobilizable IncR 000204__CP008701_00115 MOBP NC_021576_00050 - - - - CP014299 0.00302611 730
AI2660_v1_c4 233 11 Browse 0 7 4897 15.92
Aeromonas sp.
56.57 Mobilizable - - MOBP NC_016611_00011 - - - - JN315884 0.08074790 904
AI2660_v1_c5 233 11 Browse 0 5 3438 10.93
Aeromonas veronii
55.44 Non-mobilizable rep_cluster_2023 001459__CP010948 - - - - - - CP010948 0.05542830 3150