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Setup and analysis using a public and a custom MLST scheme

In this tutorial we will demonstrate how to perform Multi Locus Sequence Typing (MLST) starting from Whole Genome Sequences (WGS) by using the MLST for WGS plugin. The plugin allows the installation of multiple public and custom MLST schemes per BIONUMERICS database and uses an extended BLAST approach to identify and optionally extract MLST alleles from genome sequences.

PDF file: 
PDF icon tutorial_mlst_for_wgs.pdf
Download sample data: 
Custom E. coli MLST scheme
Knowledge base for creating a custom MLST scheme with the MLST for WGS plugin.
Download demonstration database: 
WGS_demo_database_for_Escherichia_coli

Demonstration database containing data for a set of 60 Escherichia coli isolates. This database uses publicly available next-generation sequence reads from the Sequence Read Archive (SRA). For each isolate, NGS reads were de novo assembled into genome sequences. wgMLST alleles were called using the assembly-based and assembly-free method.

Note that the downloaded database backup file (.bnbk) can be restored via the Restore database... functionality in the BIONUMERICS startup screen.