{ "type": "genome", "identifier": "GCF_014595995.2", "organism": "Actinomyces respiraculi", "title": "Actinomyces respiraculi", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chinese Center for Disease Control and Prevention", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014595995.2", "bioproject": "PRJNA224116", "biosample": "SAMN15237431", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2744574", "species_taxid": "2744574", "organism_name": "Actinomyces respiraculi", "infraspecific_name": "strain=ZJ750", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/11/23", "asm_name": "ASM1459599v2", "asm_submitter": "Chinese Center for Disease Control and Prevention", "gbrs_paired_asm": "GCA_014595995.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/595/995/GCF_014595995.2_ASM1459599v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2912106", "genome_size_ungapped": "2912106", "gc_percent": "70.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014595995.2-RS_2024_04_27", "annotation_date": "2024-04-27", "total_gene_count": "2455", "protein_coding_gene_count": "2351", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-11-23", "dateModified": "2020-11-23", "datePublished": "2020-11-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinomyces respiraculi" ], "sample_taxid": [ "2744574" ], "sample_host_organism": [ "Marmot" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "0.783 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)": "2912106", "Number of Sequences": "1", "Longest Sequences (bp)": "2912106", "N50 (bp)": "2912106", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.1", "Number of CDSs": "2457", "Average Protein Length": "347.1", "Coding Ratio (%)": "87.9", "Number of rRNAs": "6", "Number of tRNAs": "51", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinomyces respiraculi", "strain": "strain=ZJ750", "accession": "GCA_014595995.2", "taxid": 2744574, "species_taxid": 2744574, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 970, "total_fragments": 970, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinomyces radicidentis", "strain": "strain=CCUG 36733", "accession": "GCA_001553565.1", "taxid": 111015, "species_taxid": 111015, "relation_to_type": "type", "validated": true, "ani": 82.1334, "matched_fragments": 550, "total_fragments": 970, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces marmotae", "strain": "strain=zg-325", "accession": "GCA_009829655.1", "taxid": 2737173, "species_taxid": 2737173, "relation_to_type": "type", "validated": true, "ani": 81.8478, "matched_fragments": 439, "total_fragments": 970, "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": 81.7437, "matched_fragments": 542, "total_fragments": 970, "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": 81.7339, "matched_fragments": 489, "total_fragments": 970, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces denticolens", "strain": "strain=DSM 20671", "accession": "GCA_002072185.1", "taxid": 52767, "species_taxid": 52767, "relation_to_type": "type", "validated": true, "ani": 81.5181, "matched_fragments": 458, "total_fragments": 970, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces timonensis", "strain": "strain=7400942", "accession": "GCA_000295095.1", "taxid": 1288391, "species_taxid": 1288391, "relation_to_type": "type", "validated": true, "ani": 81.4985, "matched_fragments": 484, "total_fragments": 970, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces howellii", "strain": "strain=Sh 7/4276", "accession": "GCA_009935825.1", "taxid": 52771, "species_taxid": 52771, "relation_to_type": "type", "validated": true, "ani": 81.2854, "matched_fragments": 502, "total_fragments": 970, "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": 81.2599, "matched_fragments": 519, "total_fragments": 970, "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": 81.2523, "matched_fragments": 500, "total_fragments": 970, "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": 81.2267, "matched_fragments": 516, "total_fragments": 970, "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": 80.9724, "matched_fragments": 487, "total_fragments": 970, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomyces bowdenii", "strain": "strain=DSM 15435", "accession": "GCA_017592395.1", "taxid": 131109, "species_taxid": 131109, "relation_to_type": "type", "validated": true, "ani": 80.8945, "matched_fragments": 490, "total_fragments": 970, "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": 80.535, "matched_fragments": 408, "total_fragments": 970, "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": 78.0998, "matched_fragments": 301, "total_fragments": 970, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Georgenia ruanii", "strain": "strain=JCM 15130", "accession": "GCA_009193175.1", "taxid": 348442, "species_taxid": 348442, "relation_to_type": "type", "validated": true, "ani": 77.6859, "matched_fragments": 333, "total_fragments": 970, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinotalea subterranea", "strain": "strain=HO-Ch2", "accession": "GCA_008364845.1", "taxid": 2607497, "species_taxid": 2607497, "relation_to_type": "type", "validated": true, "ani": 76.9548, "matched_fragments": 198, "total_fragments": 970, "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": 76.6636, "matched_fragments": 239, "total_fragments": 970, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014595995.2", "gtdb_species": "s__Actinomyces sp011751985", "ani": 100.0, "matched_fragments": 970, "total_fragments": 970, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.79", "min_intra_species_ani": "99.58", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_001553565.1", "gtdb_species": "s__Actinomyces radicidentis", "ani": 82.1254, "matched_fragments": 553, "total_fragments": 970, "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": "GCF_015355765.1", "gtdb_species": "s__Actinomyces haliotis", "ani": 81.7688, "matched_fragments": 486, "total_fragments": 970, "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": "GCF_000429225.1", "gtdb_species": "s__Actinomyces dentalis", "ani": 81.7369, "matched_fragments": 544, "total_fragments": 970, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.22", "min_intra_species_ani": "98.22", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001278845.1", "gtdb_species": "s__Actinomyces sp001278845", "ani": 81.5065, "matched_fragments": 537, "total_fragments": 970, "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": "GCF_000295095.1", "gtdb_species": "s__Actinomyces timonensis", "ani": 81.4414, "matched_fragments": 488, "total_fragments": 970, "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": "GCF_900637165.1", "gtdb_species": "s__Actinomyces howellii", "ani": 81.3367, "matched_fragments": 519, "total_fragments": 970, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "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": "-" }, { "accession": "GCF_013184985.2", "gtdb_species": "s__Actinomyces sp013185035", "ani": 81.2721, "matched_fragments": 518, "total_fragments": 970, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.31", "min_intra_species_ani": "99.31", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900637975.1", "gtdb_species": "s__Actinomyces viscosus", "ani": 81.2188, "matched_fragments": 514, "total_fragments": 970, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "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": "-" }, { "accession": "GCA_000711965.1", "gtdb_species": "s__Actinomyces israelii", "ani": 81.1872, "matched_fragments": 542, "total_fragments": 970, "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": 80.9968, "matched_fragments": 506, "total_fragments": 970, "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": "GCF_000159035.1", "gtdb_species": "s__Actinomyces urogenitalis", "ani": 80.9591, "matched_fragments": 488, "total_fragments": 970, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.08", "min_intra_species_ani": "98.90", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_017592395.1", "gtdb_species": "s__Actinomyces bowdenii", "ani": 80.882, "matched_fragments": 491, "total_fragments": 970, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.11", "min_intra_species_ani": "99.11", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900098745.1", "gtdb_species": "s__Actinomyces glycerinitolerans", "ani": 80.5945, "matched_fragments": 497, "total_fragments": 970, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 96.3414, "mean_intra_species_ani": "98.41", "min_intra_species_ani": "98.38", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_016598775.1", "gtdb_species": "s__Actinomyces weissii", "ani": 80.5293, "matched_fragments": 406, "total_fragments": 970, "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": "GCF_002999235.1", "gtdb_species": "s__Actinomyces sp002999235", "ani": 80.3854, "matched_fragments": 428, "total_fragments": 970, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Actinomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.35", "min_intra_species_ani": "98.35", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "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", "respiraculi" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }