{ "type": "genome", "identifier": "GCA_004367405.1", "organism": "Clostridium sp.", "title": "Clostridium sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Marine Biological Laboratory", "publication": [ {} ], "properties": { "assembly_accession": "GCA_004367405.1", "bioproject": "PRJNA264811", "biosample": "SAMN10863487", "wgs_master": "SETA00000000.1", "refseq_category": "na", "taxid": "1506", "species_taxid": "1506", "organism_name": "Clostridium sp.", "infraspecific_name": "", "isolate": "JdFRolivine-8", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/22", "asm_name": "ASM436740v1", "submitter": "Marine Biological Laboratory", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/004/367/405/GCA_004367405.1_ASM436740v1", "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": "2019-03-22", "dateModified": "2019-03-22", "datePublished": "2019-03-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Clostridium sp." ], "sample_taxid": [ "1506" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean: Hole 1301A, eastern flank of the Juan de Fuca Ridge" ], "sample_host_location_id": [], "data_size": "0.582 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)": "2042588", "Number of Sequences": "56", "Longest Sequences (bp)": "146573", "N50 (bp)": "67230", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.5", "Number of CDSs": "2069", "Average Protein Length": "281.8", "Coding Ratio (%)": "85.6", "Number of rRNAs": "0", "Number of tRNAs": "44", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_002375985.1", "gtdb_species": "s__Desulfopertinax sp002375985", "ani": 99.9134, "matched_fragments": 630, "total_fragments": 650, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Ammonifexales;f__Desulforudaceae;g__Desulfopertinax", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_001899445.1", "gtdb_species": "s__Desulfopertinax cowenii", "ani": 80.2207, "matched_fragments": 331, "total_fragments": 650, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Ammonifexales;f__Desulforudaceae;g__Desulfopertinax", "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_014859075.1", "gtdb_species": "s__Desulfopertinax sp014859075", "ani": 77.9436, "matched_fragments": 186, "total_fragments": 650, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Ammonifexales;f__Desulforudaceae;g__Desulfopertinax", "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_000018425.1", "gtdb_species": "s__Desulforudis audaxviator", "ani": 77.8496, "matched_fragments": 198, "total_fragments": 650, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Ammonifexales;f__Desulforudaceae;g__Desulforudis", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.94", "min_intra_species_ani": "99.94", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002294005.1", "gtdb_species": "s__Desulforudis sp002294005", "ani": 77.705, "matched_fragments": 135, "total_fragments": 650, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Ammonifexales;f__Desulforudaceae;g__Desulforudis", "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_009428905.1", "gtdb_species": "s__Desulfofundulus_A thermobenzoicus", "ani": 75.9951, "matched_fragments": 53, "total_fragments": 650, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Desulfotomaculales;f__Desulfovirgulaceae;g__Desulfofundulus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.96", "min_intra_species_ani": "95.37", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.16, "cell_length": 0.434, "doubling_h": 0.353, "growth_tmp": 33.457, "optimum_tmp": 35.173, "optimum_ph": 6.947, "genome_size": 4165901.003, "gc_content": 29.49, "coding_genes": 3796.985, "rRNA16S_genes": 9.374, "tRNA_genes": 78.312, "gram_stain": 0.945, "sporulation": 0.967, "motility": 0.92, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 0.944, "thermophilic_range_tmp": 0.055, "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_B", "c__Desulfotomaculia", "o__Ammonifexales", "f__Desulforudaceae", "g__Desulfopertinax", "s__Desulfopertinax sp002375985" ], "_genome_taxon": [ "Clostridium", "sp.", "d__Bacteria", "p__Bacillota_B", "c__Desulfotomaculia", "o__Ammonifexales", "f__Desulforudaceae", "g__Desulfopertinax", "s__Desulfopertinax sp002375985", "Bacteria", "Bacillota", "B", "Desulfotomaculia", "Ammonifexales", "Desulforudaceae", "Desulfopertinax", "Desulfopertinax", "sp002375985" ], "_meo": [ { "id": "MEO_0000040", "label": "marine sediment" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }