{ "type": "genome", "identifier": "GCF_014193895.1", "organism": "Clostridium fungisolvens", "title": "Clostridium fungisolvens", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Hirosaki University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014193895.1", "bioproject": "PRJNA224116", "biosample": "SAMD00229172", "wgs_master": "BLZR00000000.1", "refseq_category": "reference genome", "taxid": "1604897", "species_taxid": "1604897", "organism_name": "Clostridium fungisolvens", "infraspecific_name": "strain=TW1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/06", "asm_name": "ASM1419389v1", "asm_submitter": "Hirosaki University", "gbrs_paired_asm": "GCA_014193895.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/193/895/GCF_014193895.1_ASM1419389v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5283768", "genome_size_ungapped": "5283768", "gc_percent": "31.500000", "replicon_count": "0", "scaffold_count": "9", "contig_count": "9", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014193895.1-RS_2024_08_26", "annotation_date": "2024-08-26", "total_gene_count": "4697", "protein_coding_gene_count": "4552", "non_coding_gene_count": "126", "pubmed_id": "33734959" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-06", "dateModified": "2020-08-06", "datePublished": "2020-08-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Clostridium fungisolvens" ], "sample_taxid": [ "1604897" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan:Tokushima-shi, Tokushima" ], "sample_host_location_id": [], "data_size": "1.453 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5283646", "Number of Sequences": "8", "Longest Sequences (bp)": "5053474", "N50 (bp)": "5053474", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "31.3", "Number of CDSs": "4644", "Average Protein Length": "309.2", "Coding Ratio (%)": "81.5", "Number of rRNAs": "19", "Number of tRNAs": "92", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Clostridium fungisolvens", "strain": "strain=TW1", "accession": "GCA_014193895.1", "taxid": 1604897, "species_taxid": 1604897, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1755, "total_fragments": 1757, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Clostridium zeae", "strain": "strain=CSC2", "accession": "GCA_017312485.1", "taxid": 2759022, "species_taxid": 2759022, "relation_to_type": "type", "validated": true, "ani": 90.7474, "matched_fragments": 1433, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium manihotivorum", "strain": "strain=CT4", "accession": "GCA_004015185.1", "taxid": 2320868, "species_taxid": 2320868, "relation_to_type": "type", "validated": true, "ani": 81.3746, "matched_fragments": 849, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium fallax", "strain": "strain=NCTC8380", "accession": "GCA_900461065.1", "taxid": 1533, "species_taxid": 1533, "relation_to_type": "type", "validated": true, "ani": 78.2642, "matched_fragments": 229, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sarcina ventriculi", "strain": "strain=NCTC12966", "accession": "GCA_900456775.1", "taxid": 1267, "species_taxid": 1267, "relation_to_type": "type", "validated": true, "ani": 77.8095, "matched_fragments": 149, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium nigeriense", "strain": "strain=Marseille-P2414", "accession": "GCA_900086595.1", "taxid": 1805470, "species_taxid": 1805470, "relation_to_type": "type", "validated": true, "ani": 77.7556, "matched_fragments": 183, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium beijerinckii", "strain": "strain=DSM 791", "accession": "GCA_018223745.1", "taxid": 1520, "species_taxid": 1520, "relation_to_type": "suspected-type", "validated": true, "ani": 77.7305, "matched_fragments": 222, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium polyendosporum", "strain": "strain=JCM 30710", "accession": "GCA_018332455.1", "taxid": 69208, "species_taxid": 69208, "relation_to_type": "type", "validated": true, "ani": 77.602, "matched_fragments": 257, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium massiliamazoniense", "strain": "strain=ND2", "accession": "GCA_001403635.1", "taxid": 1347366, "species_taxid": 1347366, "relation_to_type": "type", "validated": true, "ani": 77.2834, "matched_fragments": 173, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium amylolyticum", "strain": "strain=DSM 21864", "accession": "GCA_900142075.1", "taxid": 1121298, "species_taxid": 1121298, "relation_to_type": "type", "validated": true, "ani": 76.8864, "matched_fragments": 129, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium tertium", "strain": "strain=DSM 2485", "accession": "GCA_017873245.1", "taxid": 1559, "species_taxid": 1559, "relation_to_type": "type", "validated": true, "ani": 76.8061, "matched_fragments": 207, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium neonatale", "strain": "strain=LCDC 99A005", "accession": "GCA_002553615.1", "taxid": 137838, "species_taxid": 137838, "relation_to_type": "type", "validated": true, "ani": 76.7933, "matched_fragments": 195, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium faecium", "strain": "strain=N37", "accession": "GCA_014836835.1", "taxid": 2762223, "species_taxid": 2762223, "relation_to_type": "type", "validated": true, "ani": 76.1272, "matched_fragments": 138, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arcobacter acticola", "strain": "strain=KCTC 52212", "accession": "GCA_013177675.1", "taxid": 1849015, "species_taxid": 1849015, "relation_to_type": "type", "validated": true, "ani": 76.0528, "matched_fragments": 51, "total_fragments": 1757, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014193895.1", "gtdb_species": "s__Clostridium_AR fungisolvens", "ani": 100.0, "matched_fragments": 1754, "total_fragments": 1757, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AR", "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": "GCF_017312485.1", "gtdb_species": "s__Clostridium_AR sp017312485", "ani": 90.7352, "matched_fragments": 1435, "total_fragments": 1757, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AR", "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_016595795.1", "gtdb_species": "s__Clostridium_AR sp016595795", "ani": 89.0753, "matched_fragments": 1325, "total_fragments": 1757, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AR", "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_004015185.1", "gtdb_species": "s__Clostridium_AR sp004015185", "ani": 81.3984, "matched_fragments": 848, "total_fragments": 1757, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AR", "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_009928445.1", "gtdb_species": "s__Clostridium_AR sp009928445", "ani": 81.0051, "matched_fragments": 849, "total_fragments": 1757, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AR", "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_900456775.1", "gtdb_species": "s__Clostridium_P ventriculi", "ani": 77.6601, "matched_fragments": 150, "total_fragments": 1757, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_P", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.93", "min_intra_species_ani": "98.34", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_015550425.1", "gtdb_species": "s__Clostridium sp015550425", "ani": 77.0701, "matched_fragments": 183, "total_fragments": 1757, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.01", "min_intra_species_ani": "99.01", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900759995.1", "gtdb_species": "s__Clostridium sp900759995", "ani": 76.7307, "matched_fragments": 162, "total_fragments": 1757, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.46", "min_intra_species_ani": "98.18", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.79", "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 }, "_genome_taxon": [ "Clostridium", "fungisolvens" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }