{ "type": "genome", "identifier": "GCA_022866905.1", "organism": "Clostridiaceae bacterium", "title": "Clostridiaceae bacterium", "description": "derived from metagenome; fragmented assembly; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Radboud University Nijmegen", "publication": [ {} ], "properties": { "assembly_accession": "GCA_022866905.1", "bioproject": "PRJNA821074", "biosample": "SAMN27120651", "wgs_master": "JALHVS000000000.1", "refseq_category": "na", "taxid": "1898204", "species_taxid": "1898204", "organism_name": "Clostridiaceae bacterium", "infraspecific_name": "", "isolate": "PFL82", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/09", "asm_name": "ASM2286690v1", "submitter": "Radboud University Nijmegen", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/022/866/905/GCA_022866905.1_ASM2286690v1", "excluded_from_refseq": "derived from metagenome; fragmented assembly; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-04-09", "dateModified": "2022-04-09", "datePublished": "2022-04-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Clostridiaceae bacterium" ], "sample_taxid": [ "1898204" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Russia:Bykovsky Peninsula,Polar Fox Lagoon" ], "sample_host_location_id": [], "data_size": "1.013 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 86.11, "contamination": 11.46, "strain_heterogeneity": 75.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3550271", "Number of Sequences": "1449", "Longest Sequences (bp)": "10277", "N50 (bp)": "2408", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "31.6", "Number of CDSs": "2359", "Average Protein Length": "239.5", "Coding Ratio (%)": "47.7", "Number of rRNAs": "4", "Number of tRNAs": "46", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Clostridium tagluense", "strain": "strain=A121", "accession": "GCA_003865095.1", "taxid": 360422, "species_taxid": 360422, "relation_to_type": "type", "validated": true, "ani": 82.3455, "matched_fragments": 191, "total_fragments": 311, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium bowmanii", "strain": "strain=DSM 14206", "accession": "GCA_020176155.1", "taxid": 132925, "species_taxid": 132925, "relation_to_type": "type", "validated": true, "ani": 82.3028, "matched_fragments": 193, "total_fragments": 311, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium bowmanii", "strain": "strain=DSM 14206", "accession": "GCA_018861315.1", "taxid": 132925, "species_taxid": 132925, "relation_to_type": "type", "validated": true, "ani": 82.2957, "matched_fragments": 193, "total_fragments": 311, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium algoriphilum", "strain": "strain=DSM 16153", "accession": "GCA_020443705.1", "taxid": 198347, "species_taxid": 198347, "relation_to_type": "type", "validated": true, "ani": 81.1168, "matched_fragments": 159, "total_fragments": 311, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium lacusfryxellense", "strain": "strain=DSM 14205", "accession": "GCA_018861735.1", "taxid": 205328, "species_taxid": 205328, "relation_to_type": "type", "validated": true, "ani": 80.6232, "matched_fragments": 157, "total_fragments": 311, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium frigoris", "strain": "strain=DSM 14204", "accession": "GCA_018861865.1", "taxid": 205327, "species_taxid": 205327, "relation_to_type": "type", "validated": true, "ani": 80.5123, "matched_fragments": 148, "total_fragments": 311, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium psychrophilum", "strain": "strain=DSM 14207", "accession": "GCA_018861705.1", "taxid": 132926, "species_taxid": 132926, "relation_to_type": "type", "validated": true, "ani": 80.3712, "matched_fragments": 132, "total_fragments": 311, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium estertheticum subsp. laramiense", "strain": "strain=DSM 14864", "accession": "GCA_008933175.2", "taxid": 205326, "species_taxid": 238834, "relation_to_type": "type", "validated": true, "ani": 80.1101, "matched_fragments": 150, "total_fragments": 311, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium estertheticum subsp. estertheticum", "strain": "strain=DSM 8809", "accession": "GCA_001877035.1", "taxid": 1552, "species_taxid": 238834, "relation_to_type": "type", "validated": true, "ani": 79.9905, "matched_fragments": 153, "total_fragments": 311, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 86.11, "contamination": 11.46, "strain_heterogeneity": 75.0 }, "gtdb_result": [ { "accession": "GCA_016650035.1", "gtdb_species": "s__Clostridium_AD sp016650035", "ani": 90.4882, "matched_fragments": 223, "total_fragments": 311, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AD", "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_016650095.1", "gtdb_species": "s__Clostridium_AD sp016650095", "ani": 83.4232, "matched_fragments": 181, "total_fragments": 311, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AD", "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_011065935.1", "gtdb_species": "s__Clostridium_AD estertheticum_A", "ani": 82.6519, "matched_fragments": 205, "total_fragments": 311, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AD", "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_003865095.1", "gtdb_species": "s__Clostridium_AD tagluense", "ani": 82.3455, "matched_fragments": 191, "total_fragments": 311, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AD", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.49", "min_intra_species_ani": "95.92", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.78", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_018861755.1", "gtdb_species": "s__Clostridium_AD sp018861755", "ani": 82.3228, "matched_fragments": 212, "total_fragments": 311, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AD", "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_018861315.1", "gtdb_species": "s__Clostridium_AD bowmanii", "ani": 82.2957, "matched_fragments": 193, "total_fragments": 311, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AD", "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_011065905.1", "gtdb_species": "s__Clostridium_AD estertheticum_B", "ani": 82.2535, "matched_fragments": 169, "total_fragments": 311, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AD", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.19", "min_intra_species_ani": "97.19", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.83", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002403785.1", "gtdb_species": "s__Clostridium_AD sp002403785", "ani": 81.0729, "matched_fragments": 161, "total_fragments": 311, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AD", "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_018861865.1", "gtdb_species": "s__Clostridium_AD frigoris", "ani": 80.5123, "matched_fragments": 148, "total_fragments": 311, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AD", "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_001877035.1", "gtdb_species": "s__Clostridium_AD estertheticum", "ani": 79.956, "matched_fragments": 154, "total_fragments": 311, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AD", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.08", "min_intra_species_ani": "95.13", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.81", "num_clustered_genomes": 10, "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__Clostridiales", "f__Clostridiaceae", "g__Clostridium_AD", "s__" ], "_genome_taxon": [ "Clostridiaceae", "bacterium", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Clostridiales", "f__Clostridiaceae", "g__Clostridium_AD", "s__", "Bacteria", "Bacillota", "A", "Clostridia", "Clostridiales", "Clostridiaceae", "Clostridium", "AD", "s", "", "" ], "_meo": [ { "id": "MEO_0000066", "label": "sediment" }, { "id": "MEO_0001274", "label": "polar" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }