Published September 13, 2023 | Version v2
Dataset Open

Mycobacterium genus database

Authors/Creators

  • 1. Department of Microbiology and Immunology, Peter Doherty Institute for Infection and Immunity, The University of Melbourne, Melbourne, Australia

Description

The database is built as a Mycobacterium-specific one. For this database, we used genome_updater.sh (v0.6.3; https://github.com/pirovc/genome_updater)

genome_updater.sh -d "refseq" -g "bacteria" -T "g__Mycobacterium" -f "genomic.fna.gz" -M "gtdb" -A 1 -m

In addition, we added 17 high-quality M. tuberculosis genomes to this collection (from https://doi.org/10.1186/s13059-021-02474-0 - see mtb_gramtools_lineages.csv for the list of accessions).

The mtb.ids file lists the sequence identifiers for those sequences in the database which are M. tuberculosis.

Files

mtb_gramtools_lineages.csv

Files (558.7 MB)

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md5:cbf1dc34db40bf8fd39c4c533c5f5024
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md5:39160d12258e3fb26a86f4b2b28327bf
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md5:fb9d3b59b3e3570b82d813c8a50d0ff1
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Additional details

Related works

Is described by
Preprint: 10.1101/2023.09.18.558339 (DOI)