{ "type": "genome", "identifier": "GCA_019421365.1", "organism": "Lachnospiraceae bacterium", "title": "Lachnospiraceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Yonsei University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_019421365.1", "bioproject": "PRJNA678426", "biosample": "SAMN19225090", "wgs_master": "JAHZFJ000000000.1", "refseq_category": "na", "taxid": "1898203", "species_taxid": "1898203", "organism_name": "Lachnospiraceae bacterium", "infraspecific_name": "", "isolate": "HRGM_Genome_2905", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/07/30", "asm_name": "ASM1942136v1", "submitter": "Yonsei University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/019/421/365/GCA_019421365.1_ASM1942136v1", "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": "2021-07-30", "dateModified": "2021-07-30", "datePublished": "2021-07-30", "_annotation": { "sample_count": 1, "sample_organism": [ "Lachnospiraceae bacterium" ], "sample_taxid": [ "1898203" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Seoul" ], "sample_host_location_id": [], "data_size": "1.241 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 90.96, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4411095", "Number of Sequences": "65", "Longest Sequences (bp)": "319080", "N50 (bp)": "130015", "Gap Ratio (%)": "0.010428", "GCcontent (%)": "34.5", "Number of CDSs": "3907", "Average Protein Length": "324.8", "Coding Ratio (%)": "86.3", "Number of rRNAs": "0", "Number of tRNAs": "22", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Anaerosporobacter mobilis", "strain": "strain=DSM 15930", "accession": "GCA_900142955.1", "taxid": 264463, "species_taxid": 264463, "relation_to_type": "type", "validated": true, "ani": 86.884, "matched_fragments": 1131, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerosporobacter faecicola", "strain": "strain=KCTC 15857", "accession": "GCA_012070565.1", "taxid": 2718714, "species_taxid": 2718714, "relation_to_type": "type", "validated": true, "ani": 79.6356, "matched_fragments": 476, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mobilisporobacter senegalensis", "strain": "strain=DSM 26537", "accession": "GCA_003752155.1", "taxid": 1329262, "species_taxid": 1329262, "relation_to_type": "type", "validated": true, "ani": 77.0611, "matched_fragments": 121, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerocolumna aminovalerica", "strain": "strain=DSM 1283", "accession": "GCA_900115365.1", "taxid": 1527, "species_taxid": 1527, "relation_to_type": "type", "validated": true, "ani": 76.8354, "matched_fragments": 102, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] polysaccharolyticum", "strain": "strain=DSM 1801", "accession": "GCA_900111595.1", "taxid": 29364, "species_taxid": 29364, "relation_to_type": "type", "validated": true, "ani": 76.7928, "matched_fragments": 72, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] populeti", "strain": "strain=743A", "accession": "GCA_900112775.1", "taxid": 37658, "species_taxid": 37658, "relation_to_type": "type", "validated": true, "ani": 76.5674, "matched_fragments": 90, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lachnoclostridium phytofermentans", "strain": "strain=ISDg", "accession": "GCA_000018685.1", "taxid": 66219, "species_taxid": 66219, "relation_to_type": "type", "validated": true, "ani": 76.4825, "matched_fragments": 120, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Variimorphobacter saccharofermentans", "strain": "strain=MD1", "accession": "GCA_014174405.1", "taxid": 2755051, "species_taxid": 2755051, "relation_to_type": "type", "validated": true, "ani": 76.3398, "matched_fragments": 55, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] fimetarium", "strain": "strain=DSM 9179", "accession": "GCA_900111235.1", "taxid": 99656, "species_taxid": 99656, "relation_to_type": "type", "validated": true, "ani": 75.9172, "matched_fragments": 69, "total_fragments": 1436, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 90.96, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_018372435.1", "gtdb_species": "s__Anaerosporobacter sp018372435", "ani": 87.0799, "matched_fragments": 1110, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerosporobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.90", "min_intra_species_ani": "96.04", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900142955.1", "gtdb_species": "s__Anaerosporobacter mobilis", "ani": 86.8751, "matched_fragments": 1132, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerosporobacter", "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_012070565.1", "gtdb_species": "s__Anaerosporobacter sp012070565", "ani": 79.6518, "matched_fragments": 474, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerosporobacter", "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_016591975.1", "gtdb_species": "s__TB5 sp016591975", "ani": 77.5247, "matched_fragments": 173, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__TB5", "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_900078195.1", "gtdb_species": "s__Lachnoclostridium sp900078195", "ani": 77.5193, "matched_fragments": 150, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Lachnoclostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_905214875.1", "gtdb_species": "s__KM106-2 sp905214875", "ani": 77.0881, "matched_fragments": 119, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__KM106-2", "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": "GCF_003752155.1", "gtdb_species": "s__Mobilisporobacter senegalensis", "ani": 77.0611, "matched_fragments": 121, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mobilisporobacter", "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_003526525.1", "gtdb_species": "s__Lachnoclostridium sp003526525", "ani": 76.9849, "matched_fragments": 77, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Lachnoclostridium", "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_009731425.1", "gtdb_species": "s__KM106-2 sp009731425", "ani": 76.8687, "matched_fragments": 146, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__KM106-2", "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": "GCF_900115365.1", "gtdb_species": "s__Anaerocolumna aminovalerica", "ani": 76.8354, "matched_fragments": 102, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerocolumna", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.17", "min_intra_species_ani": "99.14", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000018685.1", "gtdb_species": "s__Lachnoclostridium phytofermentans", "ani": 76.5004, "matched_fragments": 119, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Lachnoclostridium", "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_000702945.1", "gtdb_species": "s__Anaerocolumna sp000702945", "ani": 76.1584, "matched_fragments": 55, "total_fragments": 1436, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerocolumna", "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__Anaerosporobacter", "s__Anaerosporobacter sp019421365" ], "_genome_taxon": [ "Lachnospiraceae", "bacterium", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__Anaerosporobacter", "s__Anaerosporobacter sp019421365", "Bacteria", "Bacillota", "A", "Clostridia", "Lachnospirales", "Lachnospiraceae", "Anaerosporobacter", "Anaerosporobacter", "sp019421365" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }