{ "type": "genome", "identifier": "GCA_900758335.1", "organism": "Lachnospiraceae bacterium", "title": "Lachnospiraceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "DOE JGI", "publication": [ {} ], "properties": { "assembly_accession": "GCA_900758335.1", "bioproject": "PRJEB31003", "biosample": "SAMEA5278236", "wgs_master": "CAAERG000000000.1", "refseq_category": "na", "taxid": "1898203", "species_taxid": "1898203", "organism_name": "Lachnospiraceae bacterium", "infraspecific_name": "", "isolate": "HGM12114", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/06/26", "asm_name": "ERS608501_23", "submitter": "DOE JGI", "gbrs_paired_asm": "GCF_900758335.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/900/758/335/GCA_900758335.1_ERS608501_23", "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": "2020-06-26", "dateModified": "2020-06-26", "datePublished": "2020-06-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Lachnospiraceae bacterium" ], "sample_taxid": [ "1898203" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Austria" ], "sample_host_location_id": [], "data_size": "1.004 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)": "3518212", "Number of Sequences": "157", "Longest Sequences (bp)": "178415", "N50 (bp)": "55564", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "49.1", "Number of CDSs": "3353", "Average Protein Length": "301.5", "Coding Ratio (%)": "86.2", "Number of rRNAs": "0", "Number of tRNAs": "53", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Blautia wexlerae", "strain": "strain=DSM 19850", "accession": "GCA_025148125.1", "taxid": 418240, "species_taxid": 418240, "relation_to_type": "suspected-type", "validated": true, "ani": 78.1564, "matched_fragments": 98, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia wexlerae", "strain": "strain=DSM 19850", "accession": "GCA_000484655.1", "taxid": 418240, "species_taxid": 418240, "relation_to_type": "suspected-type", "validated": true, "ani": 78.023, "matched_fragments": 99, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseburia hominis", "strain": "strain=A2-183", "accession": "GCA_000225345.1", "taxid": 301301, "species_taxid": 301301, "relation_to_type": "type", "validated": true, "ani": 77.6384, "matched_fragments": 77, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marvinbryantia formatexigens", "strain": "strain=DSM 14469", "accession": "GCA_025148285.1", "taxid": 168384, "species_taxid": 168384, "relation_to_type": "type", "validated": true, "ani": 77.5858, "matched_fragments": 102, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia obeum", "strain": "strain=ATCC 29174", "accession": "GCA_025147765.1", "taxid": 40520, "species_taxid": 40520, "relation_to_type": "type", "validated": true, "ani": 77.2067, "matched_fragments": 88, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Ruminococcus] gnavus", "strain": "strain=ATCC 29149", "accession": "GCA_000169475.1", "taxid": 33038, "species_taxid": 33038, "relation_to_type": "suspected-type", "validated": true, "ani": 77.1661, "matched_fragments": 89, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sellimonas intestinalis", "strain": "strain=BR72", "accession": "GCA_001280875.1", "taxid": 1653434, "species_taxid": 1653434, "relation_to_type": "type", "validated": true, "ani": 77.1581, "matched_fragments": 54, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Ruminococcus] gnavus", "strain": "strain=JCM6515", "accession": "GCA_008121495.1", "taxid": 33038, "species_taxid": 33038, "relation_to_type": "suspected-type", "validated": true, "ani": 77.1495, "matched_fragments": 91, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia caecimuris", "strain": "strain=DSM 29492", "accession": "GCA_024622975.1", "taxid": 1796615, "species_taxid": 1796615, "relation_to_type": "type", "validated": true, "ani": 77.1473, "matched_fragments": 100, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Wansuia hejianensis", "strain": "strain=NSJ-29", "accession": "GCA_014337215.1", "taxid": 2763667, "species_taxid": 2763667, "relation_to_type": "type", "validated": true, "ani": 77.1461, "matched_fragments": 107, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hespellia stercorisuis", "strain": "strain=DSM 15480", "accession": "GCA_900142165.1", "taxid": 180311, "species_taxid": 180311, "relation_to_type": "type", "validated": true, "ani": 77.1263, "matched_fragments": 70, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Ruminococcus] gnavus", "strain": "strain=ATCC 29149", "accession": "GCA_002959615.1", "taxid": 33038, "species_taxid": 33038, "relation_to_type": "suspected-type", "validated": true, "ani": 77.1226, "matched_fragments": 90, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eubacterium ramulus", "strain": "strain=ATCC 29099", "accession": "GCA_000469345.1", "taxid": 39490, "species_taxid": 39490, "relation_to_type": "type", "validated": true, "ani": 77.0671, "matched_fragments": 64, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruminococcus gauvreauii", "strain": "strain=DSM 19829", "accession": "GCA_025151995.1", "taxid": 438033, "species_taxid": 438033, "relation_to_type": "type", "validated": true, "ani": 76.8502, "matched_fragments": 81, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Coprococcus comes", "strain": "strain=ATCC 27758", "accession": "GCA_025149785.1", "taxid": 410072, "species_taxid": 410072, "relation_to_type": "type", "validated": true, "ani": 76.8479, "matched_fragments": 68, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia massiliensis", "strain": "strain=GD9", "accession": "GCA_001487165.1", "taxid": 1737424, "species_taxid": 1737424, "relation_to_type": "type", "validated": true, "ani": 76.8329, "matched_fragments": 118, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruminococcus gauvreauii", "strain": "strain=DSM 19829", "accession": "GCA_000425525.1", "taxid": 438033, "species_taxid": 438033, "relation_to_type": "type", "validated": true, "ani": 76.741, "matched_fragments": 84, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Suipraeoptans intestinalis", "strain": "strain=68-1-5", "accession": "GCA_009696485.1", "taxid": 2606628, "species_taxid": 2606628, "relation_to_type": "type", "validated": true, "ani": 76.5018, "matched_fragments": 50, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Faecalimonas umbilicata", "strain": "strain=DSM 103426", "accession": "GCA_004346095.1", "taxid": 1912855, "species_taxid": 1912855, "relation_to_type": "type", "validated": true, "ani": 76.3959, "matched_fragments": 50, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Faecalimonas umbilicata", "strain": "strain=EGH7", "accession": "GCA_003402615.1", "taxid": 1912855, "species_taxid": 1912855, "relation_to_type": "type", "validated": true, "ani": 76.3447, "matched_fragments": 50, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eisenbergiella tayi", "strain": "strain=DSM 26961", "accession": "GCA_001881565.1", "taxid": 1432052, "species_taxid": 1432052, "relation_to_type": "type", "validated": true, "ani": 76.2054, "matched_fragments": 70, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cuneatibacter caecimuris", "strain": "strain=DSM 29486", "accession": "GCA_004216775.1", "taxid": 1796618, "species_taxid": 1796618, "relation_to_type": "type", "validated": true, "ani": 75.8042, "matched_fragments": 50, "total_fragments": 1094, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.67, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016899975.1", "gtdb_species": "s__Fusicatenibacter sp900543115", "ani": 98.3653, "matched_fragments": 801, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Fusicatenibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.27", "min_intra_species_ani": "97.10", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.78", "num_clustered_genomes": 8, "status": "conclusive" }, { "accession": "GCA_019119555.1", "gtdb_species": "s__Fusicatenibacter intestinigallinarum", "ani": 80.9194, "matched_fragments": 443, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Fusicatenibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.96", "min_intra_species_ani": "99.96", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_019115005.1", "gtdb_species": "s__Fusicatenibacter merdavium", "ani": 80.916, "matched_fragments": 466, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Fusicatenibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.43", "min_intra_species_ani": "98.88", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_017887445.1", "gtdb_species": "s__Fusicatenibacter sp017887445", "ani": 80.3374, "matched_fragments": 490, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Fusicatenibacter", "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": "GCF_015557635.1", "gtdb_species": "s__Fusicatenibacter saccharivorans", "ani": 78.8367, "matched_fragments": 194, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Fusicatenibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.82", "min_intra_species_ani": "97.27", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.77", "num_clustered_genomes": 91, "status": "-" }, { "accession": "GCA_018711275.1", "gtdb_species": "s__Pullilachnospira intestinigallinarum", "ani": 77.8035, "matched_fragments": 132, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Pullilachnospira", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.92", "min_intra_species_ani": "99.92", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900539175.1", "gtdb_species": "s__Pelethocola sp900539175", "ani": 77.7099, "matched_fragments": 124, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Pelethocola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.69", "min_intra_species_ani": "99.49", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.76", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_009696065.1", "gtdb_species": "s__Oliverpabstia intestinalis", "ani": 77.6372, "matched_fragments": 128, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Oliverpabstia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.25", "min_intra_species_ani": "96.88", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.78", "num_clustered_genomes": 19, "status": "-" }, { "accession": "GCF_013302405.1", "gtdb_species": "s__Blautia_A caecimuris", "ani": 77.273, "matched_fragments": 95, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Blautia_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.97", "min_intra_species_ani": "96.45", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.70", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCA_018714325.1", "gtdb_species": "s__Pelethocola excrementipullorum", "ani": 77.1506, "matched_fragments": 94, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Pelethocola", "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": "GCF_003477525.1", "gtdb_species": "s__Blautia_A sp003477525", "ani": 77.0669, "matched_fragments": 114, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Blautia_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.30", "min_intra_species_ani": "98.60", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.81", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_019117125.1", "gtdb_species": "s__Mediterraneibacter merdipullorum", "ani": 76.8294, "matched_fragments": 60, "total_fragments": 1094, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "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__Fusicatenibacter", "s__Fusicatenibacter sp900543115" ], "_genome_taxon": [ "Lachnospiraceae", "bacterium", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__Fusicatenibacter", "s__Fusicatenibacter sp900543115", "Bacteria", "Bacillota", "A", "Clostridia", "Lachnospirales", "Lachnospiraceae", "Fusicatenibacter", "Fusicatenibacter", "sp900543115" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }