{ "type": "genome", "identifier": "GCA_902779795.1", "organism": "uncultured Lachnospiraceae bacterium", "title": "uncultured Lachnospiraceae bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "THE ROSLIN INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902779795.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6150640", "wgs_master": "CACZDJ000000000.1", "refseq_category": "na", "taxid": "297314", "species_taxid": "297314", "organism_name": "uncultured Lachnospiraceae bacterium", "infraspecific_name": "", "isolate": "RUG12504", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/17", "asm_name": "Rumen uncultured genome RUG12504", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/779/795/GCA_902779795.1_Rumen_uncultured_genome_RUG12504", "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": "2020-02-17", "dateModified": "2020-02-17", "datePublished": "2020-02-17", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Lachnospiraceae bacterium" ], "sample_taxid": [ "297314" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom" ], "sample_host_location_id": [], "data_size": "0.712 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2514548", "Number of Sequences": "342", "Longest Sequences (bp)": "45009", "N50 (bp)": "10097", "Gap Ratio (%)": "0.016583", "GCcontent (%)": "54.0", "Number of CDSs": "1947", "Average Protein Length": "312.0", "Coding Ratio (%)": "72.5", "Number of rRNAs": "0", "Number of tRNAs": "67", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [], "cc_result": { "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900320325.1", "gtdb_species": "s__CAG-791 sp900320325", "ani": 98.1253, "matched_fragments": 463, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.20", "min_intra_species_ani": "97.02", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.73", "num_clustered_genomes": 49, "status": "conclusive" }, { "accession": "GCA_902789735.1", "gtdb_species": "s__CAG-791 sp902789735", "ani": 92.3166, "matched_fragments": 548, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.49", "min_intra_species_ani": "96.41", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.83", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_002362155.1", "gtdb_species": "s__CAG-791 sp002362155", "ani": 79.1834, "matched_fragments": 185, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.14", "min_intra_species_ani": "98.14", "mean_intra_species_af": "0.77", "min_intra_species_af": "0.77", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002395235.1", "gtdb_species": "s__CAG-791 sp002395235", "ani": 78.1684, "matched_fragments": 105, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "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_017469935.1", "gtdb_species": "s__CAG-791 sp017469935", "ani": 78.1229, "matched_fragments": 115, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "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_902801415.1", "gtdb_species": "s__CAG-791 sp902801415", "ani": 78.0249, "matched_fragments": 96, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.60", "min_intra_species_ani": "97.44", "mean_intra_species_af": "0.77", "min_intra_species_af": "0.76", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_902781215.1", "gtdb_species": "s__CAG-791 sp902781215", "ani": 77.8715, "matched_fragments": 140, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.36", "min_intra_species_ani": "96.36", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900319245.1", "gtdb_species": "s__CAG-791 sp900319245", "ani": 77.7922, "matched_fragments": 126, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.27", "min_intra_species_ani": "97.33", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.77", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCA_905235465.1", "gtdb_species": "s__CAG-791 sp905235465", "ani": 77.5023, "matched_fragments": 84, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "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_902801585.1", "gtdb_species": "s__CAG-791 sp902801585", "ani": 77.4942, "matched_fragments": 100, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "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_902777355.1", "gtdb_species": "s__CAG-791 sp902777355", "ani": 77.4398, "matched_fragments": 104, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "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_017513005.1", "gtdb_species": "s__CAG-791 sp017513005", "ani": 77.1701, "matched_fragments": 91, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.02", "min_intra_species_ani": "99.02", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002358875.1", "gtdb_species": "s__CAG-791 sp002358875", "ani": 76.7092, "matched_fragments": 81, "total_fragments": 666, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-791", "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": -0.239, "cell_length": 0.277, "doubling_h": 0.394, "growth_tmp": 37.0, "optimum_tmp": 36.16, "optimum_ph": 6.363, "genome_size": 3641163.5, "gc_content": 42.852, "coding_genes": 3283.347, "rRNA16S_genes": 6.0, "tRNA_genes": 63.727, "gram_stain": 0.885, "sporulation": 0.414, "motility": 0.448, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.988, "aerobic_respiration": 0.011, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.8, "coccus_cell_shape": 0.133, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.033, "vibrio_cell_shape": 0.033, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__CAG-791", "s__CAG-791 sp900320325" ], "_genome_taxon": [ "uncultured", "Lachnospiraceae", "bacterium", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__CAG-791", "s__CAG-791 sp900320325", "Bacteria", "Bacillota", "A", "Clostridia", "Lachnospirales", "Lachnospiraceae", "CAG-791", "CAG-791", "sp900320325" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }