TaxonMech
Microbial taxa and the strains behind them — NCBI Taxonomy identity, GTDB genomes, LPSN nomenclature and BacDive culture-collection strains, harmonized into one record per taxon from kg-microbe's transforms.
Source records live on the taxon
Every strain row carries its own genome and related records inline: NCBI, GTDB, BV-BRC/PATRIC, IMG and AllTheBacteria assemblies, and StrainInfo strain and deposit records with their DOIs and evidence. There is no separate per-source browser — open the taxon that classifies the strain.
Record browser & embedding map
Every taxon in the corpus, with its rank, domain, attesting sources, strain count and GTDB species-mapping count. Search all records, filter by left-hand facets, or explore the 2D text embedding map.
By domain
The corpus is organised by the NCBI domain each taxon sits under.
Source, schema & bulk downloads
Records are LinkML-validated YAML under data/taxa/, seeded
from committed inventories of kg-microbe's transforms. Download the complete
harmonized taxon index (index.json.gz) or inspect the LinkML schema.
Domains
What each domain bucket covers, and how many records currently sit in it.
| Domain | Records | Covers |
|---|---|---|
| Archaea | 14013 | Taxa under NCBITaxon:2157. |
| Bacteria | 605695 | Species and infraspecific taxa under NCBITaxon:2, including uncultured and environmental taxa. |
| Eukaryota | 6331 | Eukaryotic taxa attested by the sources, including taxa without BacDive strains. |
| Other | 9 | Taxa whose lineage places them under none of the four domains. |