{ "type": "genome", "identifier": "GCF_016907415.1", "organism": "Brevibacterium luteolum", "title": "Brevibacterium luteolum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016907415.1", "bioproject": "PRJNA224116", "biosample": "SAMN17619980", "wgs_master": "JAFBBX000000000.1", "refseq_category": "na", "taxid": "199591", "species_taxid": "199591", "organism_name": "Brevibacterium luteolum", "infraspecific_name": "strain=DSM 15022", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/02/19", "asm_name": "ASM1690741v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_016907415.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/907/415/GCF_016907415.1_ASM1690741v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2985081", "genome_size_ungapped": "2985081", "gc_percent": "67.000000", "replicon_count": "0", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016907415.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "2745", "protein_coding_gene_count": "2649", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-02-19", "dateModified": "2021-02-19", "datePublished": "2021-02-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Brevibacterium luteolum" ], "sample_taxid": [ "199591" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Belgium" ], "sample_host_location_id": [], "data_size": "0.812 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)": "2985081", "Number of Sequences": "1", "Longest Sequences (bp)": "2985081", "N50 (bp)": "2985081", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "67.0", "Number of CDSs": "2750", "Average Protein Length": "328.5", "Coding Ratio (%)": "90.8", "Number of rRNAs": "6", "Number of tRNAs": "53", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Brevibacterium luteolum", "strain": "strain=DSM 15022", "accession": "GCA_016907415.1", "taxid": 199591, "species_taxid": 199591, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 995, "total_fragments": 995, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Brevibacterium luteolum", "strain": "strain=CCUG 46604", "accession": "GCA_013004595.1", "taxid": 199591, "species_taxid": 199591, "relation_to_type": "type", "validated": true, "ani": 99.9831, "matched_fragments": 979, "total_fragments": 995, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Brevibacterium gallinarum", "strain": "strain=Re57", "accession": "GCA_014836885.1", "taxid": 2762220, "species_taxid": 2762220, "relation_to_type": "type", "validated": true, "ani": 93.4537, "matched_fragments": 875, "total_fragments": 995, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium ihuae", "strain": "strain=CV3", "accession": "GCA_900184225.1", "taxid": 1631743, "species_taxid": 1631743, "relation_to_type": "type", "validated": true, "ani": 80.3529, "matched_fragments": 512, "total_fragments": 995, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium daeguense", "strain": "strain=DSM 27938", "accession": "GCA_021729135.1", "taxid": 909936, "species_taxid": 909936, "relation_to_type": "type", "validated": true, "ani": 79.386, "matched_fragments": 420, "total_fragments": 995, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium rongguiense", "strain": "strain=5221", "accession": "GCA_009857845.1", "taxid": 2695267, "species_taxid": 2695267, "relation_to_type": "type", "validated": true, "ani": 79.3331, "matched_fragments": 415, "total_fragments": 995, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium atlanticum", "strain": "strain=WO024", "accession": "GCA_011617245.1", "taxid": 2697563, "species_taxid": 2697563, "relation_to_type": "type", "validated": true, "ani": 78.852, "matched_fragments": 412, "total_fragments": 995, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium sediminis", "strain": "strain=CGMCC 1.15472", "accession": "GCA_014643055.1", "taxid": 1857024, "species_taxid": 1857024, "relation_to_type": "type", "validated": true, "ani": 78.7531, "matched_fragments": 370, "total_fragments": 995, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium senegalense", "strain": "strain=JC43", "accession": "GCA_000285835.2", "taxid": 1033736, "species_taxid": 1033736, "relation_to_type": "type", "validated": true, "ani": 78.5607, "matched_fragments": 352, "total_fragments": 995, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium zhoupengii", "strain": "strain=HY170", "accession": "GCA_021117425.1", "taxid": 2898795, "species_taxid": 2898795, "relation_to_type": "type", "validated": true, "ani": 78.271, "matched_fragments": 329, "total_fragments": 995, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sediminivirga luteola", "strain": "strain=CGMCC 1.12785", "accession": "GCA_021729215.1", "taxid": 1774748, "species_taxid": 1774748, "relation_to_type": "type", "validated": true, "ani": 78.0931, "matched_fragments": 275, "total_fragments": 995, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Curtobacterium citreum", "strain": "strain=LMG8786T", "accession": "GCA_024997915.1", "taxid": 2036, "species_taxid": 2036, "relation_to_type": "type", "validated": true, "ani": 76.7673, "matched_fragments": 151, "total_fragments": 995, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013004595.1", "gtdb_species": "s__Brevibacterium luteolum", "ani": 99.9831, "matched_fragments": 979, "total_fragments": 995, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.16", "min_intra_species_ani": "95.46", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.89", "num_clustered_genomes": 7, "status": "conclusive" }, { "accession": "GCF_013359525.1", "gtdb_species": "s__Brevibacterium luteolum_A", "ani": 93.7305, "matched_fragments": 850, "total_fragments": 995, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.39", "min_intra_species_ani": "96.39", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_005280295.1", "gtdb_species": "s__Brevibacterium sp005280295", "ani": 80.5952, "matched_fragments": 541, "total_fragments": 995, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "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_900184225.1", "gtdb_species": "s__Brevibacterium ihuae", "ani": 80.3268, "matched_fragments": 518, "total_fragments": 995, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "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_009857845.1", "gtdb_species": "s__Brevibacterium rongguiense", "ani": 79.2979, "matched_fragments": 418, "total_fragments": 995, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "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_018137945.1", "gtdb_species": "s__Brevibacterium sp018137945", "ani": 79.2627, "matched_fragments": 454, "total_fragments": 995, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.80", "min_intra_species_ani": "97.80", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003315415.1", "gtdb_species": "s__Brevibacterium celere_A", "ani": 78.983, "matched_fragments": 405, "total_fragments": 995, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "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_011617245.1", "gtdb_species": "s__Brevibacterium sp011617245", "ani": 78.8878, "matched_fragments": 413, "total_fragments": 995, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "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_013623905.1", "gtdb_species": "s__Brevibacterium sediminis", "ani": 78.7492, "matched_fragments": 373, "total_fragments": 995, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.24", "min_intra_species_ani": "97.49", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000285835.1", "gtdb_species": "s__Brevibacterium senegalense", "ani": 78.5375, "matched_fragments": 354, "total_fragments": 995, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "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_019117325.1", "gtdb_species": "s__Brevibacterium intestinigallinarum", "ani": 77.9585, "matched_fragments": 263, "total_fragments": 995, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.301, "cell_length": 0.151, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 30.436, "optimum_ph": 7.911, "genome_size": 3680194.756, "gc_content": 64.593, "coding_genes": 3606.375, "rRNA16S_genes": 4.0, "tRNA_genes": 48.5, "gram_stain": 1.0, "sporulation": 0.052, "motility": 0.1, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.833, "coccus_cell_shape": 0.111, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.055, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Brevibacterium", "luteolum" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }