{ "type": "genome", "identifier": "GCF_003024715.1", "organism": "Clostridium fessum", "title": "Clostridium fessum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Seoul National University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003024715.1", "bioproject": "PRJNA224116", "biosample": "SAMN08731216", "wgs_master": "PYLO00000000.1", "refseq_category": "na", "taxid": "2126740", "species_taxid": "2126740", "organism_name": "Clostridium fessum", "infraspecific_name": "strain=SNUG30386", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/03/28", "asm_name": "ASM302471v1", "asm_submitter": "Seoul National University", "gbrs_paired_asm": "GCA_003024715.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/024/715/GCF_003024715.1_ASM302471v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3277016", "genome_size_ungapped": "3277016", "gc_percent": "48.500000", "replicon_count": "0", "scaffold_count": "33", "contig_count": "33", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003024715.1-RS_2024_03_30", "annotation_date": "2024-03-30", "total_gene_count": "3046", "protein_coding_gene_count": "2872", "non_coding_gene_count": "106", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-03-28", "dateModified": "2018-03-28", "datePublished": "2018-03-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Clostridium fessum" ], "sample_taxid": [ "2126740" ], "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": "0.926 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": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3277016", "Number of Sequences": "33", "Longest Sequences (bp)": "1087076", "N50 (bp)": "884797", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "48.3", "Number of CDSs": "2971", "Average Protein Length": "315.5", "Coding Ratio (%)": "85.8", "Number of rRNAs": "8", "Number of tRNAs": "63", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Clostridium fessum", "strain": "strain=SNUG30386", "accession": "GCA_003024715.1", "taxid": 2126740, "species_taxid": 2126740, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1077, "total_fragments": 1078, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Coprococcus phoceensis", "strain": "strain=Marseille-P3062", "accession": "GCA_900104635.1", "taxid": 1870993, "species_taxid": 1870993, "relation_to_type": "type", "validated": true, "ani": 83.5542, "matched_fragments": 78, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia luti", "strain": "strain=DSM 14534", "accession": "GCA_009707925.1", "taxid": 89014, "species_taxid": 89014, "relation_to_type": "suspected-type", "validated": true, "ani": 82.994, "matched_fragments": 121, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseburia hominis", "strain": "strain=A2-183", "accession": "GCA_000225345.1", "taxid": 301301, "species_taxid": 301301, "relation_to_type": "type", "validated": true, "ani": 82.4566, "matched_fragments": 123, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia obeum", "strain": "strain=ATCC 29174", "accession": "GCA_025147765.1", "taxid": 40520, "species_taxid": 40520, "relation_to_type": "type", "validated": true, "ani": 82.3369, "matched_fragments": 93, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Coprococcus comes", "strain": "strain=ATCC 27758", "accession": "GCA_025149785.1", "taxid": 410072, "species_taxid": 410072, "relation_to_type": "type", "validated": true, "ani": 82.2564, "matched_fragments": 104, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia wexlerae", "strain": "strain=DSM 19850", "accession": "GCA_025148125.1", "taxid": 418240, "species_taxid": 418240, "relation_to_type": "suspected-type", "validated": true, "ani": 81.9338, "matched_fragments": 119, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia wexlerae", "strain": "strain=DSM 19850", "accession": "GCA_000484655.1", "taxid": 418240, "species_taxid": 418240, "relation_to_type": "suspected-type", "validated": true, "ani": 81.8082, "matched_fragments": 109, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eubacterium ramulus", "strain": "strain=ATCC 29099", "accession": "GCA_000469345.1", "taxid": 39490, "species_taxid": 39490, "relation_to_type": "type", "validated": true, "ani": 80.8061, "matched_fragments": 90, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia massiliensis", "strain": "strain=GD9", "accession": "GCA_001487165.1", "taxid": 1737424, "species_taxid": 1737424, "relation_to_type": "type", "validated": true, "ani": 80.3166, "matched_fragments": 112, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Ruminococcus] lactaris", "strain": "strain=ATCC 29176", "accession": "GCA_025152405.1", "taxid": 46228, "species_taxid": 46228, "relation_to_type": "type", "validated": true, "ani": 79.9192, "matched_fragments": 61, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Ruminococcus] lactaris", "strain": "strain=ATCC 29176", "accession": "GCA_000155205.1", "taxid": 46228, "species_taxid": 46228, "relation_to_type": "type", "validated": true, "ani": 79.7518, "matched_fragments": 60, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterocloster asparagiformis", "strain": "strain=DSM 15981", "accession": "GCA_025149125.1", "taxid": 333367, "species_taxid": 333367, "relation_to_type": "type", "validated": true, "ani": 79.3197, "matched_fragments": 91, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hungatella hathewayi", "strain": "strain=DSM 13479", "accession": "GCA_025149285.1", "taxid": 154046, "species_taxid": 154046, "relation_to_type": "suspected-type", "validated": true, "ani": 79.2084, "matched_fragments": 126, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterocloster asparagiformis", "strain": "strain=DSM 15981", "accession": "GCA_000158075.1", "taxid": 333367, "species_taxid": 333367, "relation_to_type": "type", "validated": true, "ani": 78.9541, "matched_fragments": 85, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Diplocloster agilis", "strain": "strain=ASD5720", "accession": "GCA_019042275.1", "taxid": 2850323, "species_taxid": 2850323, "relation_to_type": "type", "validated": true, "ani": 78.2099, "matched_fragments": 63, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] aminophilum", "strain": "strain=F", "accession": "GCA_900112885.1", "taxid": 1526, "species_taxid": 1526, "relation_to_type": "type", "validated": true, "ani": 77.9751, "matched_fragments": 112, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] aminophilum", "strain": "strain=DSM 10710", "accession": "GCA_000711825.1", "taxid": 1526, "species_taxid": 1526, "relation_to_type": "type", "validated": true, "ani": 77.9563, "matched_fragments": 111, "total_fragments": 1078, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003024715.1", "gtdb_species": "s__Clostridium_Q fessum", "ani": 100.0, "matched_fragments": 1077, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.33", "min_intra_species_ani": "97.70", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.81", "num_clustered_genomes": 31, "status": "conclusive" }, { "accession": "GCF_003478505.1", "gtdb_species": "s__Ventrimonas sp003478505", "ani": 83.1291, "matched_fragments": 229, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Ventrimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.07", "min_intra_species_ani": "97.61", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.78", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_003435375.1", "gtdb_species": "s__Copromonas sp900066535", "ani": 81.841, "matched_fragments": 229, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Copromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.23", "min_intra_species_ani": "95.52", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.74", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCF_003481825.1", "gtdb_species": "s__Ventrimonas sp003481825", "ani": 81.5136, "matched_fragments": 206, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Ventrimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.33", "min_intra_species_ani": "98.65", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003480315.1", "gtdb_species": "s__Ventrimonas sp003480315", "ani": 80.7215, "matched_fragments": 207, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Ventrimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.62", "min_intra_species_ani": "98.00", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_018223375.1", "gtdb_species": "s__Clostridium_Q sp000435655", "ani": 78.8555, "matched_fragments": 177, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.36", "min_intra_species_ani": "96.90", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCA_016302185.1", "gtdb_species": "s__Clostridium_Q sp016302185", "ani": 78.335, "matched_fragments": 196, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "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_900553885.1", "gtdb_species": "s__Mediterraneibacter sp900553885", "ani": 78.2268, "matched_fragments": 53, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Mediterraneibacter", "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_900547735.1", "gtdb_species": "s__Clostridium_Q sp900547735", "ani": 78.1635, "matched_fragments": 191, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "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_018377235.1", "gtdb_species": "s__Clostridium_Q sp018377235", "ani": 78.13, "matched_fragments": 141, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "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_900626075.1", "gtdb_species": "s__Clostridium_Q transplantifaecale", "ani": 78.0385, "matched_fragments": 196, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "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_001304875.1", "gtdb_species": "s__Ventrisoma faecale", "ani": 77.9043, "matched_fragments": 150, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Ventrisoma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.23", "min_intra_species_ani": "97.74", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000466485.1", "gtdb_species": "s__Clostridium_Q symbiosum", "ani": 77.8932, "matched_fragments": 187, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.57", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.81", "num_clustered_genomes": 32, "status": "-" }, { "accession": "GCA_900555625.1", "gtdb_species": "s__Ventrimonas sp900555625", "ani": 77.8653, "matched_fragments": 103, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Ventrimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.73", "min_intra_species_ani": "98.70", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.85", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900770535.1", "gtdb_species": "s__Ventrimonas sp900770535", "ani": 77.7695, "matched_fragments": 88, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Ventrimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.72", "min_intra_species_ani": "98.72", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_009911305.1", "gtdb_species": "s__Clostridium_Q sp009911305", "ani": 77.4087, "matched_fragments": 181, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.99", "min_intra_species_ani": "98.99", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000235505.1", "gtdb_species": "s__Hungatella_A hathewayi_A", "ani": 77.2586, "matched_fragments": 99, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Hungatella_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.27", "min_intra_species_ani": "96.59", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.86", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_004554205.1", "gtdb_species": "s__Ventrimonas sp004554205", "ani": 76.9223, "matched_fragments": 90, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Ventrimonas", "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_910588325.1", "gtdb_species": "s__UBA3402 sp910588325", "ani": 76.4118, "matched_fragments": 64, "total_fragments": 1078, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__UBA3402", "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": -0.16, "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", "fessum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }