{ "type": "genome", "identifier": "GCA_900753455.1", "organism": "uncultured Atopobiaceae bacterium", "title": "uncultured Atopobiaceae bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "DOE JGI", "publication": [ {} ], "properties": { "assembly_accession": "GCA_900753455.1", "bioproject": "PRJEB31003", "biosample": "SAMEA5278465", "wgs_master": "CAADZD000000000.1", "refseq_category": "na", "taxid": "2321400", "species_taxid": "2321400", "organism_name": "uncultured Atopobiaceae bacterium", "infraspecific_name": "", "isolate": "HGM04104", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/06/25", "asm_name": "ERS396366_56", "submitter": "DOE JGI", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/900/753/455/GCA_900753455.1_ERS396366_56", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-06-25", "dateModified": "2020-06-25", "datePublished": "2020-06-25", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Atopobiaceae bacterium" ], "sample_taxid": [ "2321400" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Denmark" ], "sample_host_location_id": [], "data_size": "0.536 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 65.74, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1865524", "Number of Sequences": "784", "Longest Sequences (bp)": "19854", "N50 (bp)": "2575", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.8", "Number of CDSs": "1091", "Average Protein Length": "264.9", "Coding Ratio (%)": "46.5", "Number of rRNAs": "0", "Number of tRNAs": "31", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Olsenella uli", "strain": "strain=DSM 7084", "accession": "GCA_000143845.1", "taxid": 133926, "species_taxid": 133926, "relation_to_type": "suspected-type", "validated": true, "ani": 80.5142, "matched_fragments": 69, "total_fragments": 207, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermophilibacter mediterraneus", "strain": "strain=Marseille-P3256", "accession": "GCA_900119385.1", "taxid": 1871031, "species_taxid": 1871031, "relation_to_type": "type", "validated": true, "ani": 80.4467, "matched_fragments": 84, "total_fragments": 207, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olsenella uli", "strain": "strain=DSM 7084", "accession": "GCA_001437585.1", "taxid": 133926, "species_taxid": 133926, "relation_to_type": "suspected-type", "validated": true, "ani": 80.4284, "matched_fragments": 72, "total_fragments": 207, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olsenella phocaeensis", "strain": "strain=Marseille-P2936", "accession": "GCA_900120385.1", "taxid": 1852385, "species_taxid": 1852385, "relation_to_type": "type", "validated": true, "ani": 80.3613, "matched_fragments": 90, "total_fragments": 207, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olsenella intestinalis", "strain": "strain=KCTC 25379", "accession": "GCA_023276655.1", "taxid": 2930083, "species_taxid": 2930083, "relation_to_type": "type", "validated": true, "ani": 80.1379, "matched_fragments": 80, "total_fragments": 207, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermophilibacter provencensis", "strain": "strain=Marseille-P2912", "accession": "GCA_900128445.1", "taxid": 1852386, "species_taxid": 1852386, "relation_to_type": "type", "validated": true, "ani": 80.0927, "matched_fragments": 95, "total_fragments": 207, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Olsenella urininfantis", "strain": "strain=Marseille-P3197", "accession": "GCA_900155635.1", "taxid": 1871033, "species_taxid": 1871033, "relation_to_type": "type", "validated": true, "ani": 79.7286, "matched_fragments": 69, "total_fragments": 207, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermophilibacter immobilis", "strain": "strain=LZLJ-2", "accession": "GCA_015277515.1", "taxid": 2779519, "species_taxid": 2779519, "relation_to_type": "type", "validated": true, "ani": 79.5877, "matched_fragments": 79, "total_fragments": 207, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 65.74, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900548775.1", "gtdb_species": "s__Tractidigestivibacter sp900548775", "ani": 98.2539, "matched_fragments": 175, "total_fragments": 207, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Tractidigestivibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.69", "min_intra_species_ani": "98.21", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.74", "num_clustered_genomes": 10, "status": "conclusive" }, { "accession": "GCF_900111695.1", "gtdb_species": "s__Tractidigestivibacter sp900111695", "ani": 90.3333, "matched_fragments": 165, "total_fragments": 207, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Tractidigestivibacter", "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", 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"min_intra_species_af": "0.90", "num_clustered_genomes": 14, "status": "-" }, { "accession": "GCF_001494635.1", "gtdb_species": "s__Tractidigestivibacter scatoligenes", "ani": 87.7658, "matched_fragments": 159, "total_fragments": 207, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Tractidigestivibacter", "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_902834555.1", "gtdb_species": "s__Tractidigestivibacter sp902834555", "ani": 87.234, "matched_fragments": 169, "total_fragments": 207, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Tractidigestivibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", 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"min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_004557505.1", "gtdb_species": "s__Tractidigestivibacter sp004557505", "ani": 85.9041, "matched_fragments": 148, "total_fragments": 207, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Atopobiaceae;g__Tractidigestivibacter", "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": -0.373, "cell_length": -0.255, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.444, "optimum_ph": 6.5, "genome_size": 1899076.515, "gc_content": 49.449, "coding_genes": 1538.167, "rRNA16S_genes": 1.0, "tRNA_genes": 47.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.833, "coccus_cell_shape": 0.166, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Actinomycetota", "c__Coriobacteriia", "o__Coriobacteriales", "f__Atopobiaceae", "g__Tractidigestivibacter", "s__Tractidigestivibacter sp900548775" ], "_genome_taxon": [ "uncultured", "Atopobiaceae", "bacterium", "d__Bacteria", "p__Actinomycetota", "c__Coriobacteriia", "o__Coriobacteriales", "f__Atopobiaceae", "g__Tractidigestivibacter", "s__Tractidigestivibacter sp900548775", "Bacteria", "Actinomycetota", "Coriobacteriia", "Coriobacteriales", "Atopobiaceae", "Tractidigestivibacter", "Tractidigestivibacter", "sp900548775" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }