Submission of data to the Escherichia database

All users are welcome to submit their strain information and new allele sequences to our databases. In order that queries and requests for strains can be addressed to the submitter of isolate data, the name and affiliation of the submitter will be displayed on the website.

Please note that PubMLST is not the authoritative database for MLST, cgMLST, or wgMLST for this organism. We synchronize alleles and scheme definitions for these schemes from Enterobase. Submissions for allele and profile assignment need to be submitted to Enterobase - we cannot assign them.

In order to maintain the quality of the data, the databases are curated and all submissions will be checked before entry.

Automated submission system

We have introduced an automated system for submission of new alleles, profiles and isolate data. You can access this by clicking the 'Submissions' link in the isolate database (for isolates with or without genomes).

  • Isolate data templates in Excel format can be downloaded from the submission system.
  • Whole genome data can be submitted through the system. Please make a genome submission and attach contig files as supporting files. Contigs should be in a single FASTA file for each isolate. Make either an 'isolate' submission or a 'genome' submission - not both.

Users will need an account in order to use the submission system. Please register if you do not already have an account.

Please read the submission system documentation for further details.

Access the submission system

  • Isolates (with or without associated genome assemblies)