{ "type": "genome", "identifier": "GCF_000829905.1", "organism": "Beduini massiliensis", "title": "Beduini massiliensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "URMITE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000829905.1", "bioproject": "PRJNA224116", "biosample": "SAMEA3216842", "wgs_master": "CDPP00000000.1", "refseq_category": "reference genome", "taxid": "1585974", "species_taxid": "1585974", "organism_name": "Beduini massiliensis", "infraspecific_name": "strain=GM1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/01/24", "asm_name": "Beduini massiliensis GM1", "asm_submitter": "URMITE", "gbrs_paired_asm": "GCA_000829905.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/829/905/GCF_000829905.1_Beduini_massiliensis_GM1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2850586", "genome_size_ungapped": "2850586", "gc_percent": "36.000000", "replicon_count": "0", "scaffold_count": "6", "contig_count": "6", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000829905.1-RS_2024_11_06", "annotation_date": "2024-11-06", "total_gene_count": "2832", "protein_coding_gene_count": "2733", "non_coding_gene_count": "83", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-01-24", "dateModified": "2015-01-24", "datePublished": "2015-01-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Beduini massiliensis" ], "sample_taxid": [ "1585974" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.799 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)": "2850586", "Number of Sequences": "6", "Longest Sequences (bp)": "829176", "N50 (bp)": "666513", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "35.9", "Number of CDSs": "2755", "Average Protein Length": "308.5", "Coding Ratio (%)": "89.4", "Number of rRNAs": "7", "Number of tRNAs": "57", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Beduini massiliensis", "strain": "strain=GM1", "accession": "GCA_000829905.1", "taxid": 1585974, "species_taxid": 1585974, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 946, "total_fragments": 948, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Coprobacillus cateniformis", "strain": "strain=RCA1-24", "accession": "GCA_009767585.1", "taxid": 100884, "species_taxid": 100884, "relation_to_type": "type", "validated": true, "ani": 78.2535, "matched_fragments": 87, "total_fragments": 948, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] cocleatum", "strain": "strain=I50", "accession": "GCA_010206155.1", "taxid": 69824, "species_taxid": 69824, "relation_to_type": "type", "validated": true, "ani": 77.6294, "matched_fragments": 72, "total_fragments": 948, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Longibaculum muris", "strain": "strain=DSM 29487", "accession": "GCA_004343035.1", "taxid": 1796628, "species_taxid": 1796628, "relation_to_type": "type", "validated": true, "ani": 77.6013, "matched_fragments": 99, "total_fragments": 948, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] saccharogumia", "strain": "strain=DSM 17460", "accession": "GCA_000686665.1", "taxid": 341225, "species_taxid": 341225, "relation_to_type": "type", "validated": true, "ani": 77.5226, "matched_fragments": 56, "total_fragments": 948, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Coprobacillus cateniformis", "strain": "strain=JCM 10604", "accession": "GCA_001312445.1", "taxid": 100884, "species_taxid": 100884, "relation_to_type": "type", "validated": true, "ani": 77.5102, "matched_fragments": 82, "total_fragments": 948, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Longibaculum muris", "strain": "strain=DSM 29487", "accession": "GCA_024622235.1", "taxid": 1796628, "species_taxid": 1796628, "relation_to_type": "type", "validated": true, "ani": 77.4541, "matched_fragments": 101, "total_fragments": 948, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] cocleatum", "strain": "strain=ATCC 29902", "accession": "GCA_002803405.1", "taxid": 69824, "species_taxid": 69824, "relation_to_type": "type", "validated": true, "ani": 77.3539, "matched_fragments": 69, "total_fragments": 948, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] cocleatum", "strain": "strain=DSM 1551", "accession": "GCA_024622895.1", "taxid": 69824, "species_taxid": 69824, "relation_to_type": "type", "validated": true, "ani": 77.2817, "matched_fragments": 68, "total_fragments": 948, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000829905.1", "gtdb_species": "s__Beduini massiliensis", "ani": 100.0, "matched_fragments": 947, "total_fragments": 948, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Coprobacillaceae;g__Beduini", "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": "conclusive" }, { "accession": "GCA_902363625.1", "gtdb_species": "s__Beduini sp902363625", "ani": 86.703, "matched_fragments": 810, "total_fragments": 948, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Coprobacillaceae;g__Beduini", "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_001244545.1", "gtdb_species": "s__Stoquefichus sp001244545", "ani": 78.998, "matched_fragments": 105, "total_fragments": 948, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Coprobacillaceae;g__Stoquefichus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.22", "min_intra_species_ani": "98.22", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009767585.1", "gtdb_species": "s__Coprobacillus cateniformis", "ani": 78.2259, "matched_fragments": 84, "total_fragments": 948, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Coprobacillaceae;g__Coprobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.28", "min_intra_species_ani": "99.05", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 12, "status": "-" }, { "accession": "GCA_018365815.1", "gtdb_species": "s__Beduini sp018365815", "ani": 78.067, "matched_fragments": 150, "total_fragments": 948, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Coprobacillaceae;g__Beduini", "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_900544435.1", "gtdb_species": "s__Faecalibacillus sp900544435", "ani": 77.4984, "matched_fragments": 66, "total_fragments": 948, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Coprobacillaceae;g__Faecalibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.05", "min_intra_species_ani": "98.83", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.74", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000686665.1", "gtdb_species": "s__Erysipelatoclostridium saccharogumia", "ani": 77.4736, "matched_fragments": 57, "total_fragments": 948, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Coprobacillaceae;g__Erysipelatoclostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900550005.1", "gtdb_species": "s__Beduini sp900550005", "ani": 77.3501, "matched_fragments": 119, "total_fragments": 948, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Coprobacillaceae;g__Beduini", "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_002160865.1", "gtdb_species": "s__Massiliomicrobiota sp002160865", "ani": 76.9735, "matched_fragments": 93, "total_fragments": 948, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Erysipelotrichales;f__Coprobacillaceae;g__Massiliomicrobiota", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.99", "min_intra_species_ani": "97.96", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.83", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": null, "optimum_ph": null, "genome_size": 2850586.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Beduini", "massiliensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }