{ "type": "genome", "identifier": "GCA_020072805.1", "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_020072805.1", "bioproject": "PRJNA728365", "biosample": "SAMN20254028", "wgs_master": "JAIQGC000000000.1", "refseq_category": "na", "taxid": "2081523", "species_taxid": "2081523", "organism_name": "Acidobacteriia bacterium", "infraspecific_name": "", "isolate": "SRVP_33", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/09/20", "asm_name": "ASM2007280v1", "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/020/072/805/GCA_020072805.1_ASM2007280v1", "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": "1.125 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 99.54, "contamination": 8.33, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3975944", "Number of Sequences": "157", "Longest Sequences (bp)": "136500", "N50 (bp)": "48205", "Gap Ratio (%)": "0.022636", "GCcontent (%)": "61.0", "Number of CDSs": "3422", "Average Protein Length": "325.2", "Coding Ratio (%)": "84.0", "Number of rRNAs": "2", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "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": 75.7654, "matched_fragments": 50, "total_fragments": 1246, "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": 75.6697, "matched_fragments": 51, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga borbori", "strain": "strain=LA-38", "accession": "GCA_003417535.1", "taxid": 2294117, "species_taxid": 2294117, "relation_to_type": "type", "validated": true, "ani": 74.8813, "matched_fragments": 52, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polyangium fumosum", "strain": "strain=DSM 14668", "accession": "GCA_005144585.1", "taxid": 889272, "species_taxid": 889272, "relation_to_type": "neotype", "validated": true, "ani": 74.8751, "matched_fragments": 61, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schlegelella thermodepolymerans", "strain": "strain=DSM 15344", "accession": "GCA_002933415.1", "taxid": 215580, "species_taxid": 215580, "relation_to_type": "type", "validated": true, "ani": 74.8591, "matched_fragments": 52, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schlegelella thermodepolymerans", "strain": "strain=DSM 15344", "accession": "GCA_015476235.1", "taxid": 215580, "species_taxid": 215580, "relation_to_type": "type", "validated": true, "ani": 74.8511, "matched_fragments": 53, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schlegelella thermodepolymerans", "strain": "strain=DSM 15344", "accession": "GCA_003349825.1", "taxid": 215580, "species_taxid": 215580, "relation_to_type": "type", "validated": true, "ani": 74.8511, "matched_fragments": 53, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fulvimonas soli", "strain": "strain=LMG 19981", "accession": "GCA_006352285.1", "taxid": 155197, "species_taxid": 155197, "relation_to_type": "type", "validated": true, "ani": 74.8149, "matched_fragments": 58, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fulvimonas soli", "strain": "strain=DSM 14263", "accession": "GCA_003148905.1", "taxid": 155197, "species_taxid": 155197, "relation_to_type": "type", "validated": true, "ani": 74.8056, "matched_fragments": 61, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azohydromonas lata", "strain": "strain=NBRC 102462", "accession": "GCA_001571085.1", "taxid": 45677, "species_taxid": 45677, "relation_to_type": "type", "validated": true, "ani": 74.7516, "matched_fragments": 81, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.54, "contamination": 8.33, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_003154775.1", "gtdb_species": "s__Acidoferrum sp003154775", "ani": 77.5811, "matched_fragments": 214, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.89", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.96", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_018268785.1", "gtdb_species": "s__Acidoferrum sp018268785", "ani": 77.5314, "matched_fragments": 142, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.88", "min_intra_species_ani": "99.88", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002478115.1", "gtdb_species": "s__Acidoferrum typicum", "ani": 77.3471, "matched_fragments": 208, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_003224055.1", "gtdb_species": "s__Acidoferrum sp003224055", "ani": 77.2212, "matched_fragments": 218, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_013289835.1", "gtdb_species": "s__Acidoferrum sp013289835", "ani": 77.15, "matched_fragments": 213, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_013289825.1", "gtdb_species": "s__Acidoferrum sp013289825", "ani": 77.136, "matched_fragments": 151, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_003224085.1", "gtdb_species": "s__Acidoferrum sp003224085", "ani": 77.0595, "matched_fragments": 169, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_003225295.1", "gtdb_species": "s__Acidoferrum sp003225295", "ani": 77.0227, "matched_fragments": 206, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.19", "min_intra_species_ani": "98.55", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_003224075.1", "gtdb_species": "s__Acidoferrum sp003224075", "ani": 77.009, "matched_fragments": 145, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_013289585.1", "gtdb_species": "s__Acidoferrum sp013289585", "ani": 76.9865, "matched_fragments": 214, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_003224525.1", "gtdb_species": "s__Acidoferrum sp003224525", "ani": 76.9747, "matched_fragments": 226, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_003224145.1", "gtdb_species": "s__Acidoferrum sp003224145", "ani": 76.9377, "matched_fragments": 178, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_003161195.1", "gtdb_species": "s__Acidoferrum sp003161195", "ani": 76.9217, "matched_fragments": 189, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_003223215.1", "gtdb_species": "s__Acidoferrum sp003223215", "ani": 76.8015, "matched_fragments": 187, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.72", "min_intra_species_ani": "99.57", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_001919715.1", "gtdb_species": "s__Acidoferrum sp001919715", "ani": 76.8002, "matched_fragments": 108, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.05", "min_intra_species_ani": "97.05", "mean_intra_species_af": "0.64", "min_intra_species_af": "0.64", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_003223245.1", "gtdb_species": "s__Acidoferrum sp003223245", "ani": 76.788, "matched_fragments": 164, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_003224105.1", "gtdb_species": "s__Acidoferrum sp003224105", "ani": 76.7041, "matched_fragments": 147, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_001914785.1", "gtdb_species": "s__Acidoferrum sp001914785", "ani": 76.6984, "matched_fragments": 173, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_903970165.1", "gtdb_species": "s__Acidoferrum sp903970165", "ani": 76.648, "matched_fragments": 154, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "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_001917435.1", "gtdb_species": "s__Acidoferrum sp001917435", "ani": 76.6469, "matched_fragments": 167, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__Acidoferrum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.54", "min_intra_species_ani": "99.43", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.83", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_010365215.1", "gtdb_species": "s__JAAFGT01 sp010365215", "ani": 76.3567, "matched_fragments": 112, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Acidobacteriota;c__Acidobacteriae;o__Acidoferrales;f__UBA7541;g__JAAFGT01", "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": "-" } ] }, "_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__Acidoferrales", "f__UBA7541", "g__JAIQGC01", "s__JAIQGC01 sp020072805" ], "_genome_taxon": [ "Acidobacteriia", "bacterium", "d__Bacteria", "p__Acidobacteriota", "c__Terriglobia", "o__Acidoferrales", "f__UBA7541", "g__JAIQGC01", "s__JAIQGC01 sp020072805", "Bacteria", "Acidobacteriota", "Terriglobia", "Acidoferrales", "UBA7541", "JAIQGC01", "JAIQGC01", "sp020072805" ], "_meo": [ { "id": "MEO_0001143", "label": "freshwater sediment" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }