{ "type": "genome", "identifier": "GCF_900128465.1", "organism": "Actinomyces bouchesdurhonensis", "title": "Actinomyces bouchesdurhonensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "URMITE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900128465.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4555840", "wgs_master": "FQSA00000000.1", "refseq_category": "na", "taxid": "1852361", "species_taxid": "1852361", "organism_name": "Actinomyces bouchesdurhonensis", "infraspecific_name": "strain=Marseille-P2825T", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/12/02", "asm_name": "PRJEB18045", "asm_submitter": "URMITE", "gbrs_paired_asm": "GCA_900128465.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/128/465/GCF_900128465.1_PRJEB18045", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2300105", "genome_size_ungapped": "2270190", "gc_percent": "63.500000", "replicon_count": "0", "scaffold_count": "31", "contig_count": "114", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900128465.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "2160", "protein_coding_gene_count": "1780", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-12-02", "dateModified": "2016-12-02", "datePublished": "2016-12-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinomyces bouchesdurhonensis" ], "sample_taxid": [ "1852361" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.629 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 89.58, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2300105", "Number of Sequences": "31", "Longest Sequences (bp)": "755718", "N50 (bp)": "493375", "Gap Ratio (%)": "1.318983", "GCcontent (%)": "63.3", "Number of CDSs": "2061", "Average Protein Length": "302.2", "Coding Ratio (%)": "81.2", "Number of rRNAs": "4", "Number of tRNAs": "51", "Number of CRISPRs": "6" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Schaalia meyeri", "strain": "strain=FDAARGOS_985", "accession": "GCA_016127995.1", "taxid": 52773, "species_taxid": 52773, "relation_to_type": "type", "validated": true, "ani": 81.343, "matched_fragments": 385, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schaalia meyeri", "strain": "strain=DSM 20733", "accession": "GCA_900105015.1", "taxid": 52773, "species_taxid": 52773, "relation_to_type": "type", "validated": true, "ani": 81.0927, "matched_fragments": 381, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schaalia hyovaginalis", "strain": "strain=DSM 10695", "accession": "GCA_014208035.1", "taxid": 29316, "species_taxid": 29316, "relation_to_type": "type", "validated": true, "ani": 78.8495, "matched_fragments": 215, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schaalia vaccimaxillae", "strain": "strain=DSM 15804", "accession": "GCA_000420425.1", "taxid": 183916, "species_taxid": 183916, "relation_to_type": "type", "validated": true, "ani": 78.6222, "matched_fragments": 126, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces haliotis", "strain": "strain=JCM 18848", "accession": "GCA_015355765.1", "taxid": 1280843, "species_taxid": 1280843, "relation_to_type": "type", "validated": true, "ani": 78.1918, "matched_fragments": 127, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces provencensis", "strain": "strain=SN12", "accession": "GCA_900155435.1", "taxid": 1720198, "species_taxid": 1720198, "relation_to_type": "type", "validated": true, "ani": 78.1664, "matched_fragments": 173, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces respiraculi", "strain": "strain=ZJ750", "accession": "GCA_014595995.2", "taxid": 2744574, "species_taxid": 2744574, "relation_to_type": "type", "validated": true, "ani": 78.0324, "matched_fragments": 127, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces oris", "strain": "strain=FDAARGOS_1051", "accession": "GCA_016127955.1", "taxid": 544580, "species_taxid": 544580, "relation_to_type": "suspected-type", "validated": true, "ani": 77.8651, "matched_fragments": 129, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces radicidentis", "strain": "strain=CCUG 36733", "accession": "GCA_001553565.1", "taxid": 111015, "species_taxid": 111015, "relation_to_type": "type", "validated": true, "ani": 77.8495, "matched_fragments": 147, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces faecalis", "strain": "strain=ZJ34", "accession": "GCA_013184985.2", "taxid": 2722820, "species_taxid": 2722820, "relation_to_type": "type", "validated": true, "ani": 77.8081, "matched_fragments": 112, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces oris", "strain": "strain=CCUG 34288", "accession": "GCA_006546825.1", "taxid": 544580, "species_taxid": 544580, "relation_to_type": "suspected-type", "validated": true, "ani": 77.7557, "matched_fragments": 127, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces urogenitalis", "strain": "strain=DSM 15434", "accession": "GCA_000159035.1", "taxid": 103621, "species_taxid": 103621, "relation_to_type": "type", "validated": true, "ani": 77.3421, "matched_fragments": 113, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brachybacterium aquaticum", "strain": "strain=DSM 28796", "accession": "GCA_014204755.1", "taxid": 1432564, "species_taxid": 1432564, "relation_to_type": "type", "validated": true, "ani": 77.1559, "matched_fragments": 87, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulomonas timonensis", "strain": "strain=SN7", "accession": "GCA_900046455.1", "taxid": 1689271, "species_taxid": 1689271, "relation_to_type": "type", "validated": true, "ani": 76.9479, "matched_fragments": 85, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flaviflexus equikiangi", "strain": "strain=dk850", "accession": "GCA_014069875.1", "taxid": 2758573, "species_taxid": 2758573, "relation_to_type": "type", "validated": true, "ani": 76.8896, "matched_fragments": 63, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulomonas fulva", "strain": "strain=DKR-3", "accession": "GCA_018531375.1", "taxid": 2835530, "species_taxid": 2835530, "relation_to_type": "type", "validated": true, "ani": 76.6348, "matched_fragments": 93, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides jishulii", "strain": "strain=dk3136", "accession": "GCA_006007965.1", "taxid": 2575440, "species_taxid": 2575440, "relation_to_type": "type", "validated": true, "ani": 76.5948, "matched_fragments": 56, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium llatzerense", "strain": "strain=MG13", "accession": "GCA_025331195.1", "taxid": 280871, "species_taxid": 280871, "relation_to_type": "type", "validated": true, "ani": 76.3023, "matched_fragments": 53, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulomonas avistercoris", "strain": "strain=Sa3CUA2", "accession": "GCA_014836445.1", "taxid": 2762242, "species_taxid": 2762242, "relation_to_type": "type", "validated": true, "ani": 76.2981, "matched_fragments": 105, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides furvisabuli", "strain": "strain=JCM 13813", "accession": "GCA_021083185.1", "taxid": 375542, "species_taxid": 375542, "relation_to_type": "type", "validated": true, "ani": 76.0988, "matched_fragments": 66, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura rupiterrae", "strain": "strain=DSM 45251", "accession": "GCA_024172125.1", "taxid": 559627, "species_taxid": 559627, "relation_to_type": "type", "validated": true, "ani": 75.9451, "matched_fragments": 75, "total_fragments": 752, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 89.58, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900128465.1", "gtdb_species": "s__Pauljensenia bouchesdurhonensis", "ani": 99.9999, "matched_fragments": 750, "total_fragments": 752, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "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_000466265.1", "gtdb_species": "s__Pauljensenia sp000466265", "ani": 87.4379, "matched_fragments": 532, "total_fragments": 752, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.80", "min_intra_species_ani": "96.80", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902373545.1", "gtdb_species": "s__Pauljensenia sp902373545", "ani": 84.9463, "matched_fragments": 481, "total_fragments": 752, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.43", "min_intra_species_ani": "97.43", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.84", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000278725.1", "gtdb_species": "s__Pauljensenia sp000278725", "ani": 84.7666, "matched_fragments": 531, "total_fragments": 752, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.30", "min_intra_species_ani": "95.28", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001064145.1", "gtdb_species": "s__Pauljensenia sp001064145", "ani": 84.4484, "matched_fragments": 513, "total_fragments": 752, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "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_000411415.1", "gtdb_species": "s__Pauljensenia sp000411415", "ani": 84.3683, "matched_fragments": 527, "total_fragments": 752, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.95", "min_intra_species_ani": "97.15", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_001838165.1", "gtdb_species": "s__Pauljensenia sp001838165", "ani": 84.2954, "matched_fragments": 512, "total_fragments": 752, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.43", "min_intra_species_ani": "95.77", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_005696695.1", "gtdb_species": "s__Pauljensenia odontolytica_C", "ani": 84.2521, "matched_fragments": 505, "total_fragments": 752, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.76", "min_intra_species_ani": "95.52", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_001072465.1", "gtdb_species": "s__Pauljensenia sp001072465", "ani": 84.1713, "matched_fragments": 515, "total_fragments": 752, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.78", "min_intra_species_ani": "97.78", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018382595.1", "gtdb_species": "s__Pauljensenia sp018382595", "ani": 84.1142, "matched_fragments": 437, "total_fragments": 752, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "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_002847525.1", "gtdb_species": "s__Pauljensenia odontolytica_B", "ani": 84.0421, "matched_fragments": 515, "total_fragments": 752, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.06", "min_intra_species_ani": "96.22", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.165, "cell_length": 0.258, "doubling_h": null, "growth_tmp": 36.951, "optimum_tmp": 36.833, "optimum_ph": 7.0, "genome_size": 2699137.843, "gc_content": 65.627, "coding_genes": 2308.7, "rRNA16S_genes": 3.0, "tRNA_genes": 49.8, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.2, "anaerobic_respiration": 0.428, "aerobic_respiration": 0.371, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.95, "coccus_cell_shape": 0.05, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Actinomyces", "bouchesdurhonensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }