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 analysis

Multi-Locus Sequence Typing (MLST) using the BIONUMERICS MLST online plugin. See the MLST application page for a complete overview.
Download PDF file: 
Download sample data: 
MLST query sequences
FASTA file containing the first allele for each of the seven housekeeping genes from the Listeria monocytogenes MLST schema, for use with the Sequence extraction plugin.
Download demonstration database: 

Demonstration database containing data for a set of 51 Listeria monocytogenes 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.