Metadata and MAGs for "Global biosynthetic potential of Acidobacteriota" paper

Acidobacteriota MAGs and metadata Dataset contents acido.mags.tar.gz - 6,169 metagenome-assembled genomes (MAGs) of Acidobacteriota in FASTA format. metadata.tsv - Tab-separated metadata table (6,169 rows, 54 columns) describing each MAG. environment_classification.png - Environmental classification categories of the MAGs. Column descriptions for metadata.tsv Genome identifier Column Description record Unique genome identifier. Format depends on the source: NCBI Assembly accession (e.g., GCA_000179915.2_ASM17991v2_genomic), JGI taxon OID with bin number (e.g., 3300012889_2), mOTUs-db genome name (e.g., TARA_SAMEA2621099_MAG_00000082), or sponge MAG label (e.g., Aply16_bin.10.permissive). BGC annotations (antiSMASH) Column Description bgc_category Semicolon-separated list of biosynthetic gene cluster (BGC) types detected by antiSMASH (e.g., terpene;NRPS-like;T3PKS). bgc_lengths Semicolon-separated list of BGC lengths in base pairs, in the same order as bgc_category. asmod_completeness Mean antiSMASH module completeness score across all detected BGCs (0–1). region_completeness Mean region completeness score across all detected BGC regions (0–1). candidate_completeness Mean candidate cluster completeness score (0–1). proto_cluster_completeness Mean proto-cluster completeness score (0–1). protocore_completeness Mean proto-core completeness score (0–1). GTDB taxonomy Column Description domain GTDB domain classification (all d_Bacteria). phylum GTDB phylum (all p_Acidobacteriota). class GTDB class (e.g., c_Terriglobia, c_Vicinamibacteria). order GTDB order (e.g., o_Terriglobales, o_Bryobacterales). family GTDB family (e.g., f_Acidobacteriaceae, f_Koribacteraceae). genus GTDB genus (e.g., g_Edaphobacter). Empty string if unclassified at this rank. species GTDB species (e.g., s_Koribacter versatilis_A). Empty string if unclassified at this rank. Genome information Column Description genome Genome FASTA filename within the archive (e.g., 637000001.fna). secondary_cluster dRep secondary cluster assignment (e.g., 778_1). Groups genomes at ~95% ANI. drep_cluster_size Number of genomes in the dRep secondary cluster. spec_met_ratio Specialized metabolite ratio: proportion of total CDS devoted to BGCs. Genome quality metrics (CheckM2) Column Description completeness CheckM2 estimated genome completeness (%). contamination CheckM2 estimated genome contamination (%). coding_density Fraction of the genome that is protein-coding. contig_n50 Contig N50 in base pairs. avg_gene_length Average predicted gene length in base pairs. genome_size Total genome assembly size in base pairs. gc_content GC content as a proportion (0–1). total_cds Total number of predicted protein-coding sequences. total_contigs Total number of contigs in the assembly. max_contig_length Length of the longest contig in base pairs. Environmental classification Column Description broad_environment High-level environment: terrestrial, aquatic, or Unknown. narrow_environment Intermediate environment: soil, freshwater, marine, plants, rhizosphere, other organisms, or Unknown. specific_environment Detailed environment annotation where available (e.g., wastewater, peatland), or Unknown. host_associated Whether the genome is from a host-associated environment: host-associated or Unknown. sediment Whether the genome is from a sediment environment: sediment or Unknown. For the environment classification, please see the environment_classification.png figure. BGC counts by type Column Description bgc_count Total number of BGCs detected per genome. NRPS Number of non-ribosomal peptide synthetase (NRPS and NRPS-like) BGCs. terpene Number of terpene BGCs. PKS Number of polyketide synthase (PKS) BGCs (T1PKS, T3PKS, etc.). saccharide Number of saccharide BGCs. hybrid Number of hybrid BGCs. other Number of BGCs not classified into the above categories. RiPP Number of ribosomally synthesized and post-translationally modified peptide (RiPP) BGCs. halogenated Number of halogenated BGCs. BGC ratios by type Column Description RiPP_ratio Fraction of total BGCs that are RiPPs. halogenated_ratio Fraction of total BGCs that are halogenated. NRPS_ratio Fraction of total BGCs that are NRPS/NRPS-like. terpene_ratio Fraction of total BGCs that are terpenes. PKS_ratio Fraction of total BGCs that are PKS. saccharide_ratio Fraction of total BGCs that are saccharides. hybrid_ratio Fraction of total BGCs that are hybrids. other_ratio Fraction of total BGCs in the "other" category. Source provenance Column Description source Metadata origin for the genome: JGI (3,132 genomes from IMG/M), NCBI (1,638 genomes from NCBI Assembly), mOTUs-db (1,278 genomes from the mOTUs database), or Sponge (121 genomes from a local sponge metagenome collection). project Project or study identifier. Contains BioProject accession for NCBI genomes (e.g., PRJNA48971), IMG taxon OID for JGI genomes (e.g., 3300012889), or publication URL for mOTUs-db genomes. Empty for Sponge genomes. sample BioSample accession for NCBI genomes (e.g., SAMN00100755). Empty for all other sources.