Brucella database for mashID - 2026-09-22

<p dir="ltr">Mash sketch database of the genus Brucella (NCBI taxon 234), including the species formerly classified as Ochrobactrum, for species-level identification with mashID (github.com/duceppemo/mashID).</p><p dir="ltr">Contents</p><p dir="ltr">- brucella_2026-09-22.msh: Mash 2.3 sketches, k-mer size 21, sketch size 10000, 387 reference genomes covering 29 Brucella species (31 MB). MD5: bf3336e18cf0418a3490b60a1b0d9483</p><p dir="ltr">- brucella_2026-09-22.metadata.tsv: one line per reference with accession, organism name, NCBI TaxID, genome length, sketch hash count, source file and original fasta header. mashID reads it automatically when it sits next to the .msh file.</p><p dir="ltr">Construction</p><p dir="ltr">All 1995 GenBank assemblies of taxon 234 available on 2026-09-22 were downloaded with NCBI Datasets (atypical assemblies excluded), binned by species using the organism name of the NCBI assembly report, and dereplicated within each species with Assembly-dereplicator 0.3.2 at a Mash distance of 0.0003.

This distance is finer than the 0.001 used for other mashID databases because the classical Brucella species are only 0.2 to 0.5% apart; at 0.001 too few representatives survived to resolve them. Assemblies named only "Brucella sp." were excluded. Organism names and TaxIDs come from the NCBI assembly report.