{ "type": "genome", "identifier": "GCA_020073645.1", "organism": "Acidobacteriia bacterium", "title": "Acidobacteriia bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Jill Banfield's Lab at Berkeley", "publication": [ {} ], "properties": { "assembly_accession": "GCA_020073645.1", "bioproject": "PRJNA728365", "biosample": "SAMN20254012", "wgs_master": "JAIQET000000000.1", "refseq_category": "na", "taxid": "2081523", "species_taxid": "2081523", "organism_name": "Acidobacteriia bacterium", "infraspecific_name": "", "isolate": "SRVP_17", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/09/20", "asm_name": "ASM2007364v1", "submitter": "Jill Banfield's Lab at Berkeley", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/020/073/645/GCA_020073645.1_ASM2007364v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-09-20", "dateModified": "2021-09-20", "datePublished": "2021-09-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Acidobacteriia bacterium" ], "sample_taxid": [ "2081523" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: California, Lake County" ], "sample_host_location_id": [], "data_size": "1.266 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 83.33, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4431635", "Number of Sequences": "123", "Longest Sequences (bp)": "328092", "N50 (bp)": "56889", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.2", "Number of CDSs": "3856", "Average Protein Length": "322.3", "Coding Ratio (%)": "84.1", "Number of rRNAs": "1", "Number of tRNAs": "44", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Edaphobacter aggregans", "strain": "strain=DSM 19364", "accession": "GCA_000745965.1", "taxid": 570835, "species_taxid": 570835, "relation_to_type": "type", "validated": true, "ani": 76.1069, "matched_fragments": 50, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracidobacterium acidisoli", "strain": "strain=4G-K13", "accession": "GCA_003428625.2", "taxid": 2303751, "species_taxid": 2303751, "relation_to_type": "type", "validated": true, "ani": 76.0554, "matched_fragments": 83, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Edaphobacter modestus", "strain": "strain=DSM 18101", "accession": "GCA_004217555.1", "taxid": 388466, "species_taxid": 388466, "relation_to_type": "type", "validated": true, "ani": 76.0235, "matched_fragments": 55, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Silvibacterium dinghuense", "strain": "strain=CGMCC 1.13007", "accession": "GCA_014640355.1", "taxid": 1560006, "species_taxid": 1560006, "relation_to_type": "type", "validated": true, "ani": 75.8769, "matched_fragments": 75, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Silvibacterium bohemicum", "strain": "strain=DSM 103733", "accession": "GCA_014201455.1", "taxid": 1577686, "species_taxid": 1577686, "relation_to_type": "type", "validated": true, "ani": 75.8502, "matched_fragments": 70, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Silvibacterium bohemicum", "strain": "strain=S15", "accession": "GCA_001006305.1", "taxid": 1577686, "species_taxid": 1577686, "relation_to_type": "type", "validated": true, "ani": 75.8502, "matched_fragments": 70, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Silvibacterium dinghuense", "strain": "strain=DHOF10", "accession": "GCA_004123295.1", "taxid": 1560006, "species_taxid": 1560006, "relation_to_type": "type", "validated": true, "ani": 75.8385, "matched_fragments": 77, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Occallatibacter riparius", "strain": "strain=DSM 25168", "accession": "GCA_025264625.1", "taxid": 1002689, "species_taxid": 1002689, "relation_to_type": "type", "validated": true, "ani": 75.7811, "matched_fragments": 54, "total_fragments": 1424, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 83.33, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_018268755.1", "gtdb_species": "s__KAN-5 sp018268755", "ani": 77.2719, "matched_fragments": 274, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__KAN-5", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_003139995.1", "gtdb_species": "s__Bog-209 sp003139995", "ani": 77.1443, "matched_fragments": 208, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Bog-209", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.91", "min_intra_species_ani": "99.89", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_016201265.1", "gtdb_species": "s__QIAJ01 sp016201265", "ani": 77.121, "matched_fragments": 222, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__QIAJ01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.34", "min_intra_species_ani": "99.34", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.79", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_003156805.1", "gtdb_species": "s__Sulfotelmatobacter sp003156805", "ani": 77.0766, "matched_fragments": 238, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Sulfotelmatobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.79", "min_intra_species_ani": "99.79", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_017883385.1", "gtdb_species": "s__Sulfotelmatobacter sp017883385", "ani": 77.0235, "matched_fragments": 263, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Sulfotelmatobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_013290025.1", "gtdb_species": "s__JABCYV01 sp013290025", "ani": 77.0175, "matched_fragments": 218, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__JABCYV01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_003154055.1", "gtdb_species": "s__QIAJ01 sp003154055", "ani": 76.9556, "matched_fragments": 195, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__QIAJ01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_017883425.1", "gtdb_species": "s__Sulfotelmatobacter sp017883425", "ani": 76.9373, "matched_fragments": 264, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Sulfotelmatobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_003225055.1", "gtdb_species": "s__Gp1-AA122 sp003225055", "ani": 76.9324, "matched_fragments": 240, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Gp1-AA122", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.43", "min_intra_species_ani": "99.43", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_013288805.1", "gtdb_species": "s__JABDBE01 sp013288805", "ani": 76.8815, "matched_fragments": 154, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__JABDBE01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_013289795.1", "gtdb_species": "s__JABCZH01 sp013289795", "ani": 76.8356, "matched_fragments": 277, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__JABCZH01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_003132825.1", "gtdb_species": "s__PALSA-270 sp003132825", "ani": 76.8308, "matched_fragments": 207, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__PALSA-270", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_003225595.1", "gtdb_species": "s__Gp1-AA124 sp003225595", "ani": 76.8176, "matched_fragments": 241, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Gp1-AA124", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_003140075.1", "gtdb_species": "s__Sulfotelmatobacter sp003140075", "ani": 76.8109, "matched_fragments": 219, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Sulfotelmatobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_003138955.1", "gtdb_species": "s__Bog-209 sp003138955", "ani": 76.8047, "matched_fragments": 190, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Bog-209", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_003162935.1", "gtdb_species": "s__Bog-209 sp003162935", "ani": 76.7317, "matched_fragments": 152, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Bog-209", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.71", "min_intra_species_ani": "99.50", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.82", "num_clustered_genomes": 23, "status": "-" }, { "accession": "GCA_003151335.1", "gtdb_species": "s__Bog-257 sp003151335", "ani": 76.7178, "matched_fragments": 160, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__Koribacteraceae;g__Bog-257", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.88", "min_intra_species_ani": "99.88", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_003132405.1", "gtdb_species": "s__Bog-209 sp003132405", "ani": 76.7031, "matched_fragments": 136, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Bog-209", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.82", "min_intra_species_ani": "99.57", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.89", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCA_003225455.1", "gtdb_species": "s__QIAB01 sp003225455", "ani": 76.6693, "matched_fragments": 223, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__QIAB01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_001918935.1", "gtdb_species": "s__40CM-3-55-5 sp001918935", "ani": 76.578, "matched_fragments": 161, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__40CM-3-55-5", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.62", "min_intra_species_ani": "98.09", "mean_intra_species_af": "0.68", "min_intra_species_af": "0.56", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_003152695.1", "gtdb_species": "s__Bog-257 sp003152695", "ani": 76.5603, "matched_fragments": 157, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__Koribacteraceae;g__Bog-257", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.78", "min_intra_species_ani": "99.24", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_003224905.1", "gtdb_species": "s__QIAA01 sp003224905", "ani": 76.5378, "matched_fragments": 227, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__QIAA01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_003224855.1", "gtdb_species": "s__Gp1-AA142 sp003224855", "ani": 76.4986, "matched_fragments": 144, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Gp1-AA142", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.01", "min_intra_species_ani": "99.01", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016185395.1", "gtdb_species": "s__JACPNR01 sp016185395", "ani": 76.4654, "matched_fragments": 144, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__JACPNR01;g__JACPNR01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_003136335.1", "gtdb_species": "s__Sulfotelmatobacter sp003136335", "ani": 76.3804, "matched_fragments": 212, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__SbA1;g__Sulfotelmatobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_001006305.1", "gtdb_species": "s__Silvibacterium bohemicum", "ani": 75.8329, "matched_fragments": 71, "total_fragments": 1424, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidobacteriales;f__Acidobacteriaceae;g__Silvibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_gtdb_taxon": [ "d__Bacteria", "p__Acidobacteriota", "c__Terriglobia", "o__Terriglobales", "f__SbA1", "g__JAIQET01", "s__JAIQET01 sp020073645" ], "_genome_taxon": [ "Acidobacteriia", "bacterium", "d__Bacteria", "p__Acidobacteriota", "c__Terriglobia", "o__Terriglobales", "f__SbA1", "g__JAIQET01", "s__JAIQET01 sp020073645", "Bacteria", "Acidobacteriota", "Terriglobia", "Terriglobales", "SbA1", "JAIQET01", "JAIQET01", "sp020073645" ], "_meo": [ { "id": "MEO_0001143", "label": "freshwater sediment" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }