{ "type": "genome", "identifier": "GCA_016290665.1", "organism": "Clostridiaceae bacterium", "title": "Clostridiaceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Baqiyatallah University of Medical Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCA_016290665.1", "bioproject": "PRJNA631951", "biosample": "SAMN16243840", "wgs_master": "JAEEUW000000000.1", "refseq_category": "na", "taxid": "1898204", "species_taxid": "1898204", "organism_name": "Clostridiaceae bacterium", "infraspecific_name": "", "isolate": "Tb.RUG.438", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/12/22", "asm_name": "ASM1629066v1", "submitter": "Baqiyatallah University of Medical Sciences", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/016/290/665/GCA_016290665.1_ASM1629066v1", "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": "2020-12-22", "dateModified": "2020-12-22", "datePublished": "2020-12-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Clostridiaceae bacterium" ], "sample_taxid": [ "1898204" ], "sample_host_organism": [ "cattle" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Iran: Karaj" ], "sample_host_location_id": [], "data_size": "0.658 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 76.39, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2341682", "Number of Sequences": "156", "Longest Sequences (bp)": "55034", "N50 (bp)": "23350", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.5", "Number of CDSs": "1956", "Average Protein Length": "334.4", "Coding Ratio (%)": "83.8", "Number of rRNAs": "2", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Anaerotruncus massiliensis", "strain": "strain=AT3", "accession": "GCA_900199635.1", "taxid": 1673720, "species_taxid": 1673720, "relation_to_type": "type", "validated": true, "ani": 76.8659, "matched_fragments": 58, "total_fragments": 696, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bittarella massiliensis", "strain": "strain=GD6", "accession": "GCA_001486165.1", "taxid": 1720313, "species_taxid": 1720313, "relation_to_type": "type", "validated": true, "ani": 76.5249, "matched_fragments": 51, "total_fragments": 696, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ligaoa zhengdingensis", "strain": "strain=NSJ-31", "accession": "GCA_014384885.1", "taxid": 2763658, "species_taxid": 2763658, "relation_to_type": "type", "validated": true, "ani": 76.0911, "matched_fragments": 51, "total_fragments": 696, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 76.39, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_016290665.1", "gtdb_species": "s__UBA6857 sp016290665", "ani": 100.0, "matched_fragments": 687, "total_fragments": 696, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Acutalibacteraceae;g__UBA6857", "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_017544665.1", "gtdb_species": "s__UBA6857 sp017544665", "ani": 83.6763, "matched_fragments": 451, "total_fragments": 696, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Acutalibacteraceae;g__UBA6857", "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_902786285.1", "gtdb_species": "s__UBA6857 sp902786285", "ani": 82.4602, "matched_fragments": 459, "total_fragments": 696, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Acutalibacteraceae;g__UBA6857", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.81", "min_intra_species_ani": "96.53", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.83", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_902761265.1", "gtdb_species": "s__UBA6857 sp902761265", "ani": 81.7387, "matched_fragments": 392, "total_fragments": 696, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Acutalibacteraceae;g__UBA6857", "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_902774035.1", "gtdb_species": "s__UBA6857 sp902774035", "ani": 80.7239, "matched_fragments": 326, "total_fragments": 696, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Acutalibacteraceae;g__UBA6857", "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_017434855.1", "gtdb_species": "s__UBA6857 sp017434855", "ani": 80.467, "matched_fragments": 359, "total_fragments": 696, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Acutalibacteraceae;g__UBA6857", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.64", "min_intra_species_ani": "98.64", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_017454485.1", "gtdb_species": "s__UBA6857 sp017454485", "ani": 79.8608, "matched_fragments": 304, "total_fragments": 696, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Acutalibacteraceae;g__UBA6857", "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_902792985.1", "gtdb_species": "s__UBA6857 sp902792985", "ani": 79.6554, "matched_fragments": 308, "total_fragments": 696, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Acutalibacteraceae;g__UBA6857", "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_902772935.1", "gtdb_species": "s__UBA6857 sp902772935", "ani": 79.1429, "matched_fragments": 275, "total_fragments": 696, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Acutalibacteraceae;g__UBA6857", "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_017430145.1", "gtdb_species": "s__RUG806 sp017430145", "ani": 77.3054, "matched_fragments": 118, "total_fragments": 696, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Acutalibacteraceae;g__RUG806", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.10", "min_intra_species_ani": "97.98", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.79", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_902796315.1", "gtdb_species": "s__DTU089 sp902796315", "ani": 76.717, "matched_fragments": 79, "total_fragments": 696, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Acutalibacteraceae;g__DTU089", "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": -0.185, "cell_length": 0.421, "doubling_h": 0.266, "growth_tmp": 37.264, "optimum_tmp": 40.714, "optimum_ph": 7.074, "genome_size": 4032196.714, "gc_content": 30.729, "coding_genes": 3847.554, "rRNA16S_genes": 9.432, "tRNA_genes": 79.922, "gram_stain": 0.928, "sporulation": 0.868, "motility": 0.866, "range_salinity": 0.2, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 0.75, "thermophilic_range_tmp": 0.208, "psychrophilic_range_tmp": 0.041, "bacillus_cell_shape": 0.988, "coccus_cell_shape": 0.011, "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__Acutalibacteraceae", "g__UBA6857", "s__UBA6857 sp016290665" ], "_genome_taxon": [ "Clostridiaceae", "bacterium", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Oscillospirales", "f__Acutalibacteraceae", "g__UBA6857", "s__UBA6857 sp016290665", "Bacteria", "Bacillota", "A", "Clostridia", "Oscillospirales", "Acutalibacteraceae", "UBA6857", "UBA6857", "sp016290665" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }