{ "type": "genome", "identifier": "GCA_022797015.1", "organism": "Eubacterium sp.", "title": "Eubacterium sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Oak Ridge National Laboratory", "publication": [ {} ], "properties": { "assembly_accession": "GCA_022797015.1", "bioproject": "PRJNA603829", "biosample": "SAMN14273845", "wgs_master": "JAAWJT000000000.1", "refseq_category": "na", "taxid": "142586", "species_taxid": "142586", "organism_name": "Eubacterium sp.", "infraspecific_name": "", "isolate": "ABMPRH_230_1", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/01", "asm_name": "ASM2279701v1", "submitter": "Oak Ridge National Laboratory", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/022/797/015/GCA_022797015.1_ASM2279701v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-04-01", "dateModified": "2022-04-01", "datePublished": "2022-04-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Eubacterium sp." ], "sample_taxid": [ "142586" ], "sample_host_organism": [ "Mus musculus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Knoxville, TN" ], "sample_host_location_id": [], "data_size": "1.174 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4177580", "Number of Sequences": "148", "Longest Sequences (bp)": "138167", "N50 (bp)": "48199", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "47.3", "Number of CDSs": "3848", "Average Protein Length": "312.4", "Coding Ratio (%)": "86.3", "Number of rRNAs": "0", "Number of tRNAs": "36", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Roseburia inulinivorans", "strain": "strain=DSM 16841", "accession": "GCA_000174195.1", "taxid": 360807, "species_taxid": 360807, "relation_to_type": "suspected-type", "validated": true, "ani": 76.3843, "matched_fragments": 60, "total_fragments": 1318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseburia intestinalis", "strain": "strain=L1 82", "accession": "GCA_025151715.1", "taxid": 166486, "species_taxid": 166486, "relation_to_type": "type", "validated": true, "ani": 76.3256, "matched_fragments": 60, "total_fragments": 1318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseburia intestinalis", "strain": "strain=L1-82", "accession": "GCA_000156535.1", "taxid": 166486, "species_taxid": 166486, "relation_to_type": "type", "validated": true, "ani": 76.3243, "matched_fragments": 60, "total_fragments": 1318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseburia intestinalis", "strain": "strain=L1-82", "accession": "GCA_900537995.1", "taxid": 166486, "species_taxid": 166486, "relation_to_type": "type", "validated": true, "ani": 76.263, "matched_fragments": 62, "total_fragments": 1318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eisenbergiella porci", "strain": "strain=WCA-389-WT-23B", "accession": "GCA_009696275.1", "taxid": 2652274, "species_taxid": 2652274, "relation_to_type": "type", "validated": true, "ani": 75.8653, "matched_fragments": 56, "total_fragments": 1318, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eisenbergiella massiliensis", "strain": "strain=AT11", "accession": "GCA_900243045.1", "taxid": 1720294, "species_taxid": 1720294, "relation_to_type": "type", "validated": true, "ani": 75.5225, "matched_fragments": 61, "total_fragments": 1318, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_910579075.1", "gtdb_species": "s__Eubacterium_J sp910579075", "ani": 99.7884, "matched_fragments": 1155, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Eubacterium_J", "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": "conclusive" }, { "accession": "GCA_910580075.1", "gtdb_species": "s__Eubacterium_J sp910580075", "ani": 79.7743, "matched_fragments": 585, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Eubacterium_J", "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_910574915.1", "gtdb_species": "s__Eubacterium_J sp910574915", "ani": 79.166, "matched_fragments": 455, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Eubacterium_J", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.60", "min_intra_species_ani": "98.88", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000364225.1", "gtdb_species": "s__Eubacterium_J plexicaudatum", "ani": 78.8661, "matched_fragments": 413, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Eubacterium_J", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.29", "min_intra_species_ani": "99.29", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_009774535.1", "gtdb_species": "s__Eubacterium_J sp009774535", "ani": 78.5592, "matched_fragments": 379, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Eubacterium_J", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.31", "min_intra_species_ani": "99.31", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_910586225.1", "gtdb_species": "s__Eubacterium_J sp910586225", "ani": 78.3585, "matched_fragments": 363, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Eubacterium_J", "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_910586445.1", "gtdb_species": "s__Eubacterium_J sp910586445", "ani": 78.2003, "matched_fragments": 350, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Eubacterium_J", "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_910577925.1", "gtdb_species": "s__Roseburia sp910577925", "ani": 77.0581, "matched_fragments": 68, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Roseburia", "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_910585625.1", "gtdb_species": "s__14-2 sp910585625", "ani": 76.9579, "matched_fragments": 59, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__14-2", "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_902363825.1", "gtdb_species": "s__CAG-45 sp000438375", "ani": 76.8424, "matched_fragments": 71, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-45", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.60", "min_intra_species_ani": "98.28", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_004793585.1", "gtdb_species": "s__CAG-56 sp004793585", "ani": 76.3494, "matched_fragments": 53, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-56", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.07", "min_intra_species_ani": "97.91", "mean_intra_species_af": "0.77", "min_intra_species_af": "0.75", "num_clustered_genomes": 12, "status": "-" }, { "accession": "GCA_910587655.1", "gtdb_species": "s__Agathobacter sp910587655", "ani": 76.2921, "matched_fragments": 93, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Agathobacter", "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_910577065.1", "gtdb_species": "s__1XD42-69 sp910577065", "ani": 76.2281, "matched_fragments": 77, "total_fragments": 1318, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__1XD42-69", "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": -0.325, "cell_length": 0.215, "doubling_h": null, "growth_tmp": 36.972, "optimum_tmp": 37.071, "optimum_ph": null, "genome_size": 3245697.074, "gc_content": 41.131, "coding_genes": 3227.555, "rRNA16S_genes": 6.0, "tRNA_genes": 59.583, "gram_stain": 0.95, "sporulation": 0.0, "motility": 0.5, "range_salinity": 0.0, "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__Lachnospirales", "f__Lachnospiraceae", "g__Eubacterium_J", "s__Eubacterium_J sp910579075" ], "_genome_taxon": [ "Eubacterium", "sp.", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__Eubacterium_J", "s__Eubacterium_J sp910579075", "Bacteria", "Bacillota", "A", "Clostridia", "Lachnospirales", "Lachnospiraceae", "Eubacterium", "J", "Eubacterium", "J", "sp910579075" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }