{ "type": "genome", "identifier": "GCA_934539585.1", "organism": "uncultured Oscillospiraceae bacterium", "title": "uncultured Oscillospiraceae bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "stanford university school of medicine", "publication": [ {} ], "properties": { "assembly_accession": "GCA_934539585.1", "bioproject": "PRJEB49206", "biosample": "SAMEA13488423", "wgs_master": "CAKTCT000000000.1", "refseq_category": "na", "taxid": "707003", "species_taxid": "707003", "organism_name": "uncultured Oscillospiraceae bacterium", "infraspecific_name": "", "isolate": "REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Nepal_MoBio_Fiber-Hadza-Nepal_F_7_RAU0027AZ.367", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/16", "asm_name": "ERR7738582_bin.367", "submitter": "stanford university school of medicine", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/934/539/585/GCA_934539585.1_ERR7738582_bin.367", "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": "2022-04-16", "dateModified": "2022-04-16", "datePublished": "2022-04-16", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Oscillospiraceae bacterium" ], "sample_taxid": [ "707003" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Nepal" ], "sample_host_location_id": [], "data_size": "0.788 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 85.42, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2798867", "Number of Sequences": "88", "Longest Sequences (bp)": "125361", "N50 (bp)": "58300", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.8", "Number of CDSs": "2540", "Average Protein Length": "321.7", "Coding Ratio (%)": "87.6", "Number of rRNAs": "1", "Number of tRNAs": "43", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Phocea massiliensis", "strain": "strain=Marseille-P2769", "accession": "GCA_900104615.1", "taxid": 1841867, "species_taxid": 1841867, "relation_to_type": "type", "validated": true, "ani": 77.0187, "matched_fragments": 81, "total_fragments": 885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Angelakisella massiliensis", "strain": "strain=Marseille-P3217", "accession": "GCA_900104675.1", "taxid": 1871018, "species_taxid": 1871018, "relation_to_type": "type", "validated": true, "ani": 76.8889, "matched_fragments": 76, "total_fragments": 885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fumia xinanensis", "strain": "strain=NSJ-33", "accession": "GCA_014384905.1", "taxid": 2763659, "species_taxid": 2763659, "relation_to_type": "type", "validated": true, "ani": 76.8538, "matched_fragments": 109, "total_fragments": 885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fournierella massiliensis", "strain": "strain=DSM 100451", "accession": "GCA_004345265.1", "taxid": 1650663, "species_taxid": 1650663, "relation_to_type": "type", "validated": true, "ani": 76.7578, "matched_fragments": 80, "total_fragments": 885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Intestinimonas butyriciproducens", "strain": "strain=DSM 26588", "accession": "GCA_024622565.1", "taxid": 1297617, "species_taxid": 1297617, "relation_to_type": "type", "validated": true, "ani": 76.6667, "matched_fragments": 61, "total_fragments": 885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium phoceensis", "strain": "strain=GD3", "accession": "GCA_001244495.1", "taxid": 1650661, "species_taxid": 1650661, "relation_to_type": "type", "validated": true, "ani": 76.5611, "matched_fragments": 81, "total_fragments": 885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dysosmobacter welbionis", "strain": "strain=J115", "accession": "GCA_005121165.3", "taxid": 2093857, "species_taxid": 2093857, "relation_to_type": "type", "validated": true, "ani": 76.5327, "matched_fragments": 91, "total_fragments": 885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Faecalibacterium prausnitzii", "strain": "strain=ATCC 27768", "accession": "GCA_003324185.1", "taxid": 853, "species_taxid": 853, "relation_to_type": "suspected-type", "validated": true, "ani": 76.399, "matched_fragments": 51, "total_fragments": 885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Subdoligranulum variabile", "strain": "strain=DSM 15176", "accession": "GCA_025152575.1", "taxid": 214851, "species_taxid": 214851, "relation_to_type": "type", "validated": true, "ani": 76.0599, "matched_fragments": 64, "total_fragments": 885, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Faecalibacterium hattorii", "strain": "strain=APC922/41-1", "accession": "GCA_003287455.1", "taxid": 2935520, "species_taxid": 2935520, "relation_to_type": "type", "validated": true, "ani": 75.8793, "matched_fragments": 64, "total_fragments": 885, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 85.42, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900555435.1", "gtdb_species": "s__Merdivicinus sp900555435", "ani": 81.6965, "matched_fragments": 379, "total_fragments": 885, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Merdivicinus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.51", "min_intra_species_ani": "98.40", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_905214265.1", "gtdb_species": "s__Merdivicinus sp905214265", "ani": 80.859, "matched_fragments": 374, "total_fragments": 885, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Merdivicinus", "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_018713245.1", "gtdb_species": "s__Merdivicinus intestinavium", "ani": 79.3971, "matched_fragments": 255, "total_fragments": 885, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Merdivicinus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.92", "min_intra_species_ani": "99.92", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018713335.1", "gtdb_species": "s__Merdivicinus intestinigallinarum", "ani": 79.3266, "matched_fragments": 290, "total_fragments": 885, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Merdivicinus", "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_018716725.1", "gtdb_species": "s__Merdivicinus excrementipullorum", "ani": 78.9607, "matched_fragments": 273, "total_fragments": 885, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Merdivicinus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.35", "min_intra_species_ani": "99.04", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_018716285.1", "gtdb_species": "s__Merdivicinus faecavium", "ani": 78.9316, "matched_fragments": 281, "total_fragments": 885, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Merdivicinus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.37", "min_intra_species_ani": "98.77", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900547455.1", "gtdb_species": "s__Negativibacillus faecipullorum", "ani": 76.4783, "matched_fragments": 66, "total_fragments": 885, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Negativibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.80", "min_intra_species_ani": "97.60", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_016901815.1", "gtdb_species": "s__Avimicrobium caecorum", "ani": 75.9444, "matched_fragments": 51, "total_fragments": 885, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Avimicrobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.00", "min_intra_species_ani": "97.74", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCA_017847995.1", "gtdb_species": "s__Heteroruminococcus sp017847995", "ani": 75.9068, "matched_fragments": 52, "total_fragments": 885, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Ruminococcaceae;g__Heteroruminococcus", "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": -0.302, "cell_length": 0.397, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 30.0, "optimum_ph": 6.25, "genome_size": 4470621.5, "gc_content": 49.895, "coding_genes": 4347.333, "rRNA16S_genes": 3.0, "tRNA_genes": 61.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": null, "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": 1.0, "coccus_cell_shape": 0.0, "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__Bacillota_A", "c__Clostridia", "o__Oscillospirales", "f__Ruminococcaceae", "g__Merdivicinus", "s__Merdivicinus sp934539585" ], "_genome_taxon": [ "uncultured", "Oscillospiraceae", "bacterium", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Oscillospirales", "f__Ruminococcaceae", "g__Merdivicinus", "s__Merdivicinus sp934539585", "Bacteria", "Bacillota", "A", "Clostridia", "Oscillospirales", "Ruminococcaceae", "Merdivicinus", "Merdivicinus", "sp934539585" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }