{ "type": "genome", "identifier": "GCF_900091655.1", "organism": "Culturomica massiliensis", "title": "Culturomica massiliensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "URMITE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900091655.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4043117", "wgs_master": "FLSN00000000.1", "refseq_category": "reference genome", "taxid": "1841857", "species_taxid": "1841857", "organism_name": "Culturomica massiliensis", "infraspecific_name": "strain=Marseille-P2698T", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/06/24", "asm_name": "PRJEB14541", "asm_submitter": "URMITE", "gbrs_paired_asm": "GCA_900091655.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/091/655/GCF_900091655.1_PRJEB14541", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4410591", "genome_size_ungapped": "4400989", "gc_percent": "43.000000", "replicon_count": "0", "scaffold_count": "11", "contig_count": "14", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900091655.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "3603", "protein_coding_gene_count": "3507", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-06-24", "dateModified": "2016-06-24", "datePublished": "2016-06-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Culturomica massiliensis" ], "sample_taxid": [ "1841857" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.235 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)": "4410591", "Number of Sequences": "11", "Longest Sequences (bp)": "4124789", "N50 (bp)": "4124789", "Gap Ratio (%)": "0.217726", "GCcontent (%)": "43.0", "Number of CDSs": "3512", "Average Protein Length": "365.6", "Coding Ratio (%)": "87.3", "Number of rRNAs": "7", "Number of tRNAs": "50", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Culturomica massiliensis", "strain": "strain=Marseille-P2698", "accession": "GCA_900091655.1", "taxid": 1841857, "species_taxid": 1841857, "relation_to_type": "type", "validated": true, "ani": 99.9994, "matched_fragments": 1461, "total_fragments": 1464, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Butyricimonas paravirosa", "strain": "strain=JCM 18677", "accession": "GCA_014647355.1", "taxid": 1472417, "species_taxid": 1472417, "relation_to_type": "type", "validated": true, "ani": 80.4641, "matched_fragments": 114, "total_fragments": 1464, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Butyricimonas faecihominis", "strain": "strain=CCUG 65562", "accession": "GCA_008830385.1", "taxid": 1472416, "species_taxid": 1472416, "relation_to_type": "type", "validated": true, "ani": 80.3693, "matched_fragments": 117, "total_fragments": 1464, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Butyricimonas faecihominis", "strain": "strain=JCM 18676", "accession": "GCA_014647335.1", "taxid": 1472416, "species_taxid": 1472416, "relation_to_type": "type", "validated": true, "ani": 80.3384, "matched_fragments": 116, "total_fragments": 1464, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Butyricimonas faecihominis", "strain": "strain=DSM 105721", "accession": "GCA_014196975.1", "taxid": 1472416, "species_taxid": 1472416, "relation_to_type": "type", "validated": true, "ani": 80.3268, "matched_fragments": 113, "total_fragments": 1464, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Odoribacter laneus", "strain": "strain=YIT 12061", "accession": "GCA_000243215.1", "taxid": 626933, "species_taxid": 626933, "relation_to_type": "type", "validated": true, "ani": 78.5079, "matched_fragments": 317, "total_fragments": 1464, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides ovatus", "strain": "strain=ATCC 8483", "accession": "GCA_025146775.1", "taxid": 28116, "species_taxid": 28116, "relation_to_type": "suspected-type", "validated": true, "ani": 78.1903, "matched_fragments": 52, "total_fragments": 1464, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Odoribacter splanchnicus", "strain": "strain=NCTC10825", "accession": "GCA_900187175.1", "taxid": 28118, "species_taxid": 28118, "relation_to_type": "type", "validated": true, "ani": 77.8137, "matched_fragments": 214, "total_fragments": 1464, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Odoribacter splanchnicus", "strain": "strain=DSM 220712", "accession": "GCA_000190535.1", "taxid": 28118, "species_taxid": 28118, "relation_to_type": "type", "validated": true, "ani": 77.813, "matched_fragments": 214, "total_fragments": 1464, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Butyricimonas virosa", "strain": "strain=DSM 23226", "accession": "GCA_025148635.1", "taxid": 544645, "species_taxid": 544645, "relation_to_type": "type", "validated": true, "ani": 77.7617, "matched_fragments": 97, "total_fragments": 1464, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Butyricimonas virosa", "strain": "strain=DSM 23226", "accession": "GCA_000519105.1", "taxid": 544645, "species_taxid": 544645, "relation_to_type": "type", "validated": true, "ani": 77.574, "matched_fragments": 92, "total_fragments": 1464, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900091655.1", "gtdb_species": "s__Odoribacter massiliensis", "ani": 99.9994, "matched_fragments": 1461, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.35", "min_intra_species_ani": "99.12", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.91", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCF_014647335.1", "gtdb_species": "s__Butyricimonas faecihominis", "ani": 80.2876, "matched_fragments": 117, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Butyricimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.47", "min_intra_species_ani": "98.30", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.86", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_900184685.1", "gtdb_species": "s__Butyricimonas sp900184685", "ani": 78.8675, "matched_fragments": 129, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Butyricimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.37", "min_intra_species_ani": "96.90", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.81", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000243215.1", "gtdb_species": "s__Odoribacter laneus", "ani": 78.4566, "matched_fragments": 315, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.26", "min_intra_species_ani": "98.81", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.87", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_905216195.1", "gtdb_species": "s__Odoribacter sp905216195", "ani": 78.3777, "matched_fragments": 302, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "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_910588375.1", "gtdb_species": "s__Odoribacter sp910588375", "ani": 77.9256, "matched_fragments": 201, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "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_000190535.1", "gtdb_species": "s__Odoribacter splanchnicus", "ani": 77.881, "matched_fragments": 215, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.99", "min_intra_species_ani": "98.34", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.73", "num_clustered_genomes": 51, "status": "-" }, { "accession": "GCA_910589025.1", "gtdb_species": "s__Odoribacter sp910589025", "ani": 77.5741, "matched_fragments": 194, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "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_000519105.1", "gtdb_species": "s__Butyricimonas virosa", "ani": 77.5713, "matched_fragments": 92, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Butyricimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.30", "min_intra_species_ani": "95.30", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.78", "num_clustered_genomes": 18, "status": "-" }, { "accession": "GCF_009935865.1", "gtdb_species": "s__Odoribacter sp009935865", "ani": 77.4223, "matched_fragments": 158, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.00", "min_intra_species_ani": "98.96", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900541415.1", "gtdb_species": "s__Odoribacter sp900541415", "ani": 77.394, "matched_fragments": 178, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900544025.1", "gtdb_species": "s__Odoribacter sp900544025", "ani": 77.0558, "matched_fragments": 155, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.76", "min_intra_species_ani": "97.68", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.80", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_910578105.1", "gtdb_species": "s__Odoribacter sp910578105", "ani": 77.032, "matched_fragments": 150, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "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_905193145.1", "gtdb_species": "s__Odoribacter sp905193145", "ani": 76.8877, "matched_fragments": 78, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "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_900548135.1", "gtdb_species": "s__Odoribacter sp900548135", "ani": 76.7659, "matched_fragments": 108, "total_fragments": 1464, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Marinifilaceae;g__Odoribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "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": [ "Culturomica", "massiliensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }