Institut Pasteur MLST databases and software

BIGSdb-Lm provides access to genotypic data for Listeria isolates based on Multilocus Sequence Typing (MLST), core genome MLST (cgMLST) and other schemes. The database is now also accessible through RESTful API (see below). Please cite Nature Microbiology (2016) 2:16185! See references for more details.

The database is currently undergoing essential curation and updates to improve the accuracy.
All the submissions pending will be resumed as soon as possible. Thank you for your patience.

listeriaMLST@pasteur.fr

Data access policy note: since January 1st, 2025, registration and authentication are mandatory to access all data curated after this date, either via the web interface or via the application programming interface (API authentication help link). Please contact us if you have any questions.

Alleles & profiles database

The typing database contains nomenclature - allele definitions that provide an identifier for every unique allele sequence, and MLST profiles that index each unique combination of alleles with a sequence type (ST).

Isolates & genomes database

The isolate database consists of isolate records containing provenance and phenotype information linked to molecular typing information. These records may also include genome assemblies.

Data submission

Submission of data for curation

Quality criteria for whole genome assembly

Metadata fields description

Template for Listeria isolates

We appreciate if you can recognize our efforts in the acknowledgments section of your publications: