Bacterial whole genome sequencing

Complete circular genomes, plasmids included

Do you have bacterial isolates that you want to characterise? Then our long-read nanopore sequencing workflow comes in handy as bacteria have larger genomes. We can reconstruct complete, circular genomes and plasmids at high sequencing depths. As a starting material, we use pure and fresh bacterial isolates.

Advanced bioinformatics analyses

We also take care of more advanced bacterial genome data-analyses using our (veterinary) pathogen genomics expertise:

> Phylogeny & MLST analysis

We use phylogenetic analysis methods to analyse the genetic relatedness & evolutionary relationship between different strains. Phylogenetic trees can be enriched with strains sequenced at PathoSense and publicly available genomes from GenBank. Analyses can be conducted on whole genome sequences and can also target specific genes of interest.

As the entire genome is at hand, multi-locus sequence (MLST) typing can also be used to classify strains according to available & internationally used MLST schedules for different types of bacteria.

> Virulence factor screening

Bacteria can harbour different types of virulence factors. Using the genetic information we can screen for the presence of virulence factors, which eventually can be used to assess the pathogenicity of some isolates.

> antimicrobial resistance screening

Antimicrobial resistance is a big challenge for animal and human health. Most analyses are conducted using phenotypic analysis methods but also the genetic code can be used to analyse potential antimicrobial resistance. This can be done by assessing the presence of genes or point mutations that are linked to antimicrobial resistance.