About this dataset
This page lets you retrieve genomes by AMR gene content. Pick up to 5 genes, choose whether samples must match any or all of them, and download the accession list — perfect for re-downloading genomes for downstream analysis.
Source
Gene presence/absence is derived from the Shelenkov et al. (2025) dataset:
Shelenkov A, Mikhailova Y. Genomic Typing, Antimicrobial Resistance Gene, Virulence Factor and Plasmid Replicon Dataset for the Important Pathogenic Bacteria Staphylococcus aureus. BMC Genomic Data (2025).
How to use it
- Click a quick-pick gene chip (or use the search filter in Tab 2)
- Optionally add up to 4 more genes — the table updates instantly
- Switch between Match ANY (union) and Match ALL (intersection)
- Click 🧬 Accessions to download the accession list as plain text
- Use the TSV/CSV/JSON exports to get per-gene presence flags for each accession
Why accession retrieval matters
Genome retrieval is the most common use case for a surveillance resource:
you want all genomes that carry mecA, or all PVL-positive isolates,
or all samples with both tet(M) and erm(B).
SAURUS gives you the accession list directly — paste it into
datasets download genome accession --inputfile list.txt
and you have the genomes.
Full data download
For the complete per-genome presence matrix in long format
(accession | gene | num_hits | identities):
amr_all.tsv
Cite
- Beckley B, Amarh V. StaphScope. BMC Genomics. 2026;27:261. DOI
- Shelenkov A, Mikhailova Y. S. aureus genomic typing dataset. BMC Genomic Data (2025).