MLST analysis
Custom E. coli MLST scheme
MLST analysis starting from whole genome sequences
In this tutorial we will search for the sequences corresponding to the seven housekeeping genes used in the online MLST scheme of Listeria monocytogenes. The assembled sequences present in the whole genome demonstration database of Listeria monocytogenes are used in this tutorial.
MLST query sequences
Follow-up analysis of MLST data
In this tutorial you will learn how to perform some cluster analyses (UPGMA tree, minimum spanning tree, maximum parsimony tree, ....) on MLST data. You will also learn how to alter the layout of the clusterings and how to export the pictures to use it in a publication, presentation, etc.
Setup and analysis using a publicly available MLST scheme
In this tutorial the most common usage scenario of the MLST online plugin is illustrated, i.e. when you want to perform MLST using an already published MLST schema, made available via http://pubmlst.org or http://www.mlst.net or any other online repository. For many clinically relevant organisms, an MLST schema is already available and using this schema ensures a consistent nomenclature.
Setup and analysis using your own custom MLST scheme
This tutorial illustrates the steps needed to set up your own MLST schema, e.g. in case you are studying a less common organism for which no MLST data are available yet.
Create a minimum spanning tree based on MLST data
MLST plugin manual
In this manual you will learn how to install and use the MLST online plugin in your BioNumerics database.