{ "type": "genome", "identifier": "GCF_018918345.1", "organism": "Butyricicoccus intestinisimiae", "title": "Butyricicoccus intestinisimiae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Institute of Microbiology of the Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_018918345.1", "bioproject": "PRJNA224116", "biosample": "SAMN19374001", "wgs_master": "JAHLQI000000000.1", "refseq_category": "reference genome", "taxid": "2841509", "species_taxid": "2841509", "organism_name": "Butyricicoccus intestinisimiae", "infraspecific_name": "strain=MSJd-7", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/06/16", "asm_name": "ASM1891834v1", "asm_submitter": "The Institute of Microbiology of the Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_018918345.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/018/918/345/GCF_018918345.1_ASM1891834v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2711934", "genome_size_ungapped": "2711934", "gc_percent": "50.500000", "replicon_count": "0", "scaffold_count": "27", "contig_count": "27", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_018918345.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "2717", "protein_coding_gene_count": "2605", "non_coding_gene_count": "84", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-06-16", "dateModified": "2021-06-16", "datePublished": "2021-06-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Butyricicoccus intestinisimiae" ], "sample_taxid": [ "2841509" ], "sample_host_organism": [ "Macaca fascicularis" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Suzhou" ], "sample_host_location_id": [], "data_size": "0.764 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)": "2711934", "Number of Sequences": "27", "Longest Sequences (bp)": "654489", "N50 (bp)": "357991", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "50.3", "Number of CDSs": "2647", "Average Protein Length": "299.9", "Coding Ratio (%)": "87.8", "Number of rRNAs": "4", "Number of tRNAs": "67", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Butyricicoccus intestinisimiae", "strain": "strain=MSJd-7", "accession": "GCA_018918345.1", "taxid": 2841509, "species_taxid": 2841509, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 894, "total_fragments": 894, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Butyricicoccus porcorum", "strain": "strain=BB10", "accession": "GCA_002157465.1", "taxid": 1945634, "species_taxid": 1945634, "relation_to_type": "type", "validated": true, "ani": 79.9219, "matched_fragments": 343, "total_fragments": 894, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Butyricicoccus pullicaecorum", "strain": "strain=DSM 23266", "accession": "GCA_900167005.1", "taxid": 501571, "species_taxid": 501571, "relation_to_type": "type", "validated": true, "ani": 78.8176, "matched_fragments": 90, "total_fragments": 894, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Butyricicoccus faecihominis", "strain": "strain=JCM 31056", "accession": "GCA_014648015.1", "taxid": 1712515, "species_taxid": 1712515, "relation_to_type": "type", "validated": true, "ani": 78.6587, "matched_fragments": 139, "total_fragments": 894, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agathobaculum desmolans", "strain": "strain=ATCC 43058", "accession": "GCA_000701665.1", "taxid": 39484, "species_taxid": 39484, "relation_to_type": "type", "validated": true, "ani": 77.3152, "matched_fragments": 80, "total_fragments": 894, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Intestinibacillus massiliensis", "strain": "strain=type strain: Marseille-P3216", "accession": "GCA_900155735.1", "taxid": 1871029, "species_taxid": 1871029, "relation_to_type": "type", "validated": true, "ani": 76.9067, "matched_fragments": 80, "total_fragments": 894, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_018918345.1", "gtdb_species": "s__Butyricicoccus_A sp002395695", "ani": 100.0, "matched_fragments": 894, "total_fragments": 894, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Butyricicoccaceae;g__Butyricicoccus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.08", "min_intra_species_ani": "98.03", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.78", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCA_004555915.1", "gtdb_species": "s__Butyricicoccus_A sp004555915", "ani": 80.3999, "matched_fragments": 353, "total_fragments": 894, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Butyricicoccaceae;g__Butyricicoccus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.18", "min_intra_species_ani": "99.18", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002157465.1", "gtdb_species": "s__Butyricicoccus_A porcorum", "ani": 79.9176, "matched_fragments": 344, "total_fragments": 894, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Butyricicoccaceae;g__Butyricicoccus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.36", "min_intra_species_ani": "99.36", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002449635.1", "gtdb_species": "s__Butyricicoccus_A sp002449635", "ani": 79.161, "matched_fragments": 222, "total_fragments": 894, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Butyricicoccaceae;g__Butyricicoccus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.64", "min_intra_species_ani": "99.40", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.80", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCA_019112985.1", "gtdb_species": "s__Butyricicoccus_A stercorigallinarum", "ani": 79.0944, "matched_fragments": 268, "total_fragments": 894, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Butyricicoccaceae;g__Butyricicoccus_A", "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_016293155.1", "gtdb_species": "s__JAEDEU01 sp016293155", "ani": 79.0024, "matched_fragments": 188, "total_fragments": 894, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Butyricicoccaceae;g__JAEDEU01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.88", "min_intra_species_ani": "98.88", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_003096535.1", "gtdb_species": "s__Agathobaculum butyriciproducens", "ani": 78.4053, "matched_fragments": 151, "total_fragments": 894, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Butyricicoccaceae;g__Agathobaculum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.66", "min_intra_species_ani": "95.68", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.79", "num_clustered_genomes": 34, "status": "-" }, { "accession": "GCA_900544475.1", "gtdb_species": "s__Agathobaculum sp900544475", "ani": 77.6979, "matched_fragments": 94, "total_fragments": 894, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Butyricicoccaceae;g__Agathobaculum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.90", "min_intra_species_ani": "97.82", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900625105.1", "gtdb_species": "s__Agathobaculum sp900625105", "ani": 77.2696, "matched_fragments": 113, "total_fragments": 894, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Butyricicoccaceae;g__Agathobaculum", "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": null, "cell_length": 0.079, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 42.0, "optimum_ph": 6.0, "genome_size": 3285179.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Butyricicoccus", "intestinisimiae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }