{ "type": "genome", "identifier": "GCF_900155435.1", "organism": "Actinomyces provencensis", "title": "Actinomyces provencensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "URMITE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900155435.1", "bioproject": "PRJNA224116", "biosample": "SAMEA37237168", "wgs_master": "FTLI00000000.1", "refseq_category": "reference genome", "taxid": "1720198", "species_taxid": "1720198", "organism_name": "Actinomyces provencensis", "infraspecific_name": "strain=SN12", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/01/06", "asm_name": "PRJEB18758", "asm_submitter": "URMITE", "gbrs_paired_asm": "GCA_900155435.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/155/435/GCF_900155435.1_PRJEB18758", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3348996", "genome_size_ungapped": "3305822", "gc_percent": "70.000000", "replicon_count": "0", "scaffold_count": "23", "contig_count": "100", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900155435.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "2934", "protein_coding_gene_count": "2753", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-01-06", "dateModified": "2017-01-06", "datePublished": "2017-01-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinomyces provencensis" ], "sample_taxid": [ "1720198" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.875 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)": "3348996", "Number of Sequences": "23", "Longest Sequences (bp)": "3298283", "N50 (bp)": "3298283", "Gap Ratio (%)": "1.292089", "GCcontent (%)": "69.9", "Number of CDSs": "2886", "Average Protein Length": "328.9", "Coding Ratio (%)": "85.0", "Number of rRNAs": "1", "Number of tRNAs": "54", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinomyces provencensis", "strain": "strain=SN12", "accession": "GCA_900155435.1", "taxid": 1720198, "species_taxid": 1720198, "relation_to_type": "type", "validated": true, "ani": 99.9998, "matched_fragments": 1106, "total_fragments": 1107, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinomyces polynesiensis", "strain": "strain=MS2", "accession": "GCA_000820725.1", "taxid": 1325934, "species_taxid": 1325934, "relation_to_type": "type", "validated": true, "ani": 88.5573, "matched_fragments": 632, "total_fragments": 1107, "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": 78.7359, "matched_fragments": 281, "total_fragments": 1107, "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": 78.3486, "matched_fragments": 244, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces viscosus", "strain": "strain=CCUG 14476", "accession": "GCA_004525795.1", "taxid": 1656, "species_taxid": 1656, "relation_to_type": "type", "validated": true, "ani": 78.1707, "matched_fragments": 243, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schaalia meyeri", "strain": "strain=FDAARGOS_985", "accession": "GCA_016127995.1", "taxid": 52773, "species_taxid": 52773, "relation_to_type": "type", "validated": true, "ani": 78.1186, "matched_fragments": 182, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces viscosus", "strain": "strain=NCTC10951", "accession": "GCA_900637975.1", "taxid": 1656, "species_taxid": 1656, "relation_to_type": "type", "validated": true, "ani": 78.0799, "matched_fragments": 251, "total_fragments": 1107, "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": 78.0424, "matched_fragments": 287, "total_fragments": 1107, "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": 78.0147, "matched_fragments": 204, "total_fragments": 1107, "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": 77.9955, "matched_fragments": 189, "total_fragments": 1107, "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": 77.9743, "matched_fragments": 192, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces dentalis", "strain": "strain=DSM 19115", "accession": "GCA_000429225.1", "taxid": 272548, "species_taxid": 272548, "relation_to_type": "type", "validated": true, "ani": 77.9289, "matched_fragments": 266, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces weissii", "strain": "strain=CCUG 61299", "accession": "GCA_016598775.1", "taxid": 675090, "species_taxid": 675090, "relation_to_type": "type", "validated": true, "ani": 77.8025, "matched_fragments": 202, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces israelii", "strain": "strain=DSM 43320", "accession": "GCA_000711965.1", "taxid": 1659, "species_taxid": 1659, "relation_to_type": "type", "validated": true, "ani": 77.7988, "matched_fragments": 271, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces ruminicola", "strain": "strain=DSM 27982", "accession": "GCA_900103885.1", "taxid": 332524, "species_taxid": 332524, "relation_to_type": "type", "validated": true, "ani": 77.7731, "matched_fragments": 227, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Georgenia yuyongxinii", "strain": "strain=Z443", "accession": "GCA_006352065.1", "taxid": 2589797, "species_taxid": 2589797, "relation_to_type": "type", "validated": true, "ani": 77.6846, "matched_fragments": 246, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Georgenia thermotolerans", "strain": "strain=NBRC 104148", "accession": "GCA_009193185.1", "taxid": 527326, "species_taxid": 527326, "relation_to_type": "type", "validated": true, "ani": 77.6761, "matched_fragments": 280, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Georgenia subflava", "strain": "strain=JCM 19765", "accession": "GCA_009362315.1", "taxid": 1622177, "species_taxid": 1622177, "relation_to_type": "type", "validated": true, "ani": 77.6278, "matched_fragments": 236, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Georgenia subflava", "strain": "strain=CGMCC 1.12782", "accession": "GCA_009193155.1", "taxid": 1622177, "species_taxid": 1622177, "relation_to_type": "type", "validated": true, "ani": 77.5626, "matched_fragments": 247, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanitalea stevensii", "strain": "strain=Sa1BUA1", "accession": "GCA_014837105.1", "taxid": 2763072, "species_taxid": 2763072, "relation_to_type": "type", "validated": true, "ani": 77.5594, "matched_fragments": 251, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces procaprae", "strain": "strain=dk561", "accession": "GCA_004798665.1", "taxid": 2560010, "species_taxid": 2560010, "relation_to_type": "type", "validated": true, "ani": 77.4328, "matched_fragments": 218, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micrococcus luteus", "strain": "strain=ATCC 4698", "accession": "GCA_003417425.1", "taxid": 1270, "species_taxid": 1270, "relation_to_type": "type", "validated": true, "ani": 77.1877, "matched_fragments": 141, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oerskovia douganii", "strain": "strain=Sa1BUA8", "accession": "GCA_015142735.1", "taxid": 2762210, "species_taxid": 2762210, "relation_to_type": "type", "validated": true, "ani": 76.8419, "matched_fragments": 207, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinotalea solisilvae", "strain": "strain=KACC 19191", "accession": "GCA_016464425.1", "taxid": 2072922, "species_taxid": 2072922, "relation_to_type": "type", "validated": true, "ani": 76.5864, "matched_fragments": 203, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Occultella gossypii", "strain": "strain=N2-46", "accession": "GCA_019947135.1", "taxid": 2800820, "species_taxid": 2800820, "relation_to_type": "type", "validated": true, "ani": 76.5215, "matched_fragments": 188, "total_fragments": 1107, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900155435.1", "gtdb_species": "s__Pauljensenia provencensis", "ani": 99.9998, "matched_fragments": 1106, "total_fragments": 1107, "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": "96.43", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_000820725.1", "gtdb_species": "s__Pauljensenia polynesiensis", "ani": 88.6246, "matched_fragments": 629, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900499005.1", "gtdb_species": "s__Pauljensenia culturomici", "ani": 79.1342, "matched_fragments": 326, "total_fragments": 1107, "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_001746855.1", "gtdb_species": "s__Pauljensenia hongkongensis", "ani": 79.0066, "matched_fragments": 242, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.51", "min_intra_species_ani": "97.69", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.72", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000429245.1", "gtdb_species": "s__Pauljensenia georgiae", "ani": 78.8521, "matched_fragments": 254, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.90", "min_intra_species_ani": "96.98", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014208035.1", "gtdb_species": "s__Pauljensenia hyovaginalis", "ani": 78.7654, "matched_fragments": 279, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.48", "min_intra_species_ani": "95.48", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018986735.1", "gtdb_species": "s__Pauljensenia sp018986735", "ani": 78.7412, "matched_fragments": 301, "total_fragments": 1107, "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": "GCA_001072465.1", "gtdb_species": "s__Pauljensenia sp001072465", "ani": 78.5732, "matched_fragments": 229, "total_fragments": 1107, "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": "GCF_000278725.1", "gtdb_species": "s__Pauljensenia sp000278725", "ani": 78.5178, "matched_fragments": 188, "total_fragments": 1107, "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": "GCA_015655375.1", "gtdb_species": "s__Pauljensenia sp015655375", "ani": 78.4441, "matched_fragments": 349, "total_fragments": 1107, "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_900155595.1", "gtdb_species": "s__Pauljensenia mediterranea", "ani": 78.2235, "matched_fragments": 203, "total_fragments": 1107, "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_903645355.1", "gtdb_species": "s__Pauljensenia sp903645355", "ani": 78.0712, "matched_fragments": 164, "total_fragments": 1107, "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_000195595.1", "gtdb_species": "s__Actinomyces sp000195595", "ani": 78.0514, "matched_fragments": 224, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "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_000711965.1", "gtdb_species": "s__Actinomyces israelii", "ani": 77.8092, "matched_fragments": 269, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.26", "min_intra_species_ani": "99.26", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900103885.1", "gtdb_species": "s__Actinomyces ruminicola", "ani": 77.7731, "matched_fragments": 227, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.80", "min_intra_species_ani": "96.66", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900106055.1", "gtdb_species": "s__Pauljensenia radingae_A", "ani": 77.2434, "matched_fragments": 105, "total_fragments": 1107, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Pauljensenia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.95", "min_intra_species_ani": "98.90", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 6, "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", "provencensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }