{ "type": "genome", "identifier": "GCF_008868375.1", "organism": "Brevibacterium linens ATCC 9172", "title": "Brevibacterium linens ATCC 9172", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Signature Science, LLC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_008868375.1", "bioproject": "PRJNA224116", "biosample": "SAMN12822021", "wgs_master": "WBML00000000.1", "refseq_category": "na", "taxid": "1255617", "species_taxid": "1703", "organism_name": "Brevibacterium linens ATCC 9172", "infraspecific_name": "strain=ATCC 9172", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/10/07", "asm_name": "ASM886837v1", "asm_submitter": "Signature Science, LLC", "gbrs_paired_asm": "GCA_008868375.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/868/375/GCF_008868375.1_ASM886837v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3951350", "genome_size_ungapped": "3951350", "gc_percent": "65.000000", "replicon_count": "0", "scaffold_count": "103", "contig_count": "103", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_008868375.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "3578", "protein_coding_gene_count": "3451", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-10-07", "dateModified": "2019-10-07", "datePublished": "2019-10-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Brevibacterium linens ATCC 9172" ], "sample_taxid": [ "1255617" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [ "not applicable" ], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.093 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)": "3951350", "Number of Sequences": "103", "Longest Sequences (bp)": "367997", "N50 (bp)": "103745", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.8", "Number of CDSs": "3541", "Average Protein Length": "329.3", "Coding Ratio (%)": "88.5", "Number of rRNAs": "2", "Number of tRNAs": "48", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Brevibacterium linens", "strain": "strain=ATCC 9172", "accession": "GCA_008868375.1", "taxid": 1703, "species_taxid": 1703, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 1261, "total_fragments": 1269, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Brevibacterium linens", "strain": "strain=ATCC 9172", "accession": "GCA_900169165.1", "taxid": 1703, "species_taxid": 1703, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9971, "matched_fragments": 1262, "total_fragments": 1269, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Brevibacterium iodinum", "strain": "strain=ATCC 49514", "accession": "GCA_900169265.1", "taxid": 31943, "species_taxid": 31943, "relation_to_type": "type", "validated": true, "ani": 91.5363, "matched_fragments": 972, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium permense", "strain": "strain=VKM Ac-2280", "accession": "GCA_013280495.1", "taxid": 234834, "species_taxid": 234834, "relation_to_type": "type", "validated": true, "ani": 91.4815, "matched_fragments": 1013, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium pigmentatum", "strain": "strain=YB235", "accession": "GCA_011617465.1", "taxid": 1496080, "species_taxid": 1496080, "relation_to_type": "type", "validated": true, "ani": 91.3502, "matched_fragments": 1039, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium sediminis", "strain": "strain=FXJ8.269", "accession": "GCA_013623905.1", "taxid": 1857024, "species_taxid": 1857024, "relation_to_type": "type", "validated": true, "ani": 91.0428, "matched_fragments": 1027, "total_fragments": 1269, "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": 91.0195, "matched_fragments": 1032, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium siliguriense", "strain": "strain=DSM 23676", "accession": "GCA_900105315.1", "taxid": 1136497, "species_taxid": 1136497, "relation_to_type": "type", "validated": true, "ani": 89.7617, "matched_fragments": 1008, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium limosum", "strain": "strain=o2", "accession": "GCA_011617705.1", "taxid": 2697565, "species_taxid": 2697565, "relation_to_type": "type", "validated": true, "ani": 89.6924, "matched_fragments": 1025, "total_fragments": 1269, "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": 81.2091, "matched_fragments": 792, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium antiquum", "strain": "strain=DSM 21545", "accession": "GCA_016107655.1", "taxid": 234835, "species_taxid": 234835, "relation_to_type": "type", "validated": true, "ani": 81.1198, "matched_fragments": 769, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacterium gallinarum", "strain": "strain=Re57", "accession": "GCA_014836885.1", "taxid": 2762220, "species_taxid": 2762220, "relation_to_type": "type", "validated": true, "ani": 78.8392, "matched_fragments": 389, "total_fragments": 1269, "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": 77.3465, "matched_fragments": 211, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oerskovia merdavium", "strain": "strain=Sa2CUA9", "accession": "GCA_014836755.1", "taxid": 2762227, "species_taxid": 2762227, "relation_to_type": "type", "validated": true, "ani": 76.642, "matched_fragments": 130, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900169165.1", "gtdb_species": "s__Brevibacterium linens", "ani": 99.9971, "matched_fragments": 1262, "total_fragments": 1269, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.12", "min_intra_species_ani": "96.02", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.82", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCF_012844365.1", "gtdb_species": "s__Brevibacterium sp012844365", "ani": 94.247, "matched_fragments": 1055, 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"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_900105315.1", "gtdb_species": "s__Brevibacterium siliguriense", "ani": 89.7617, "matched_fragments": 1008, "total_fragments": 1269, "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_011617705.1", "gtdb_species": "s__Brevibacterium sp011617705", "ani": 89.6924, "matched_fragments": 1025, "total_fragments": 1269, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Brevibacteriaceae;g__Brevibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.55", "min_intra_species_ani": "96.55", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.143, "cell_length": 0.151, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 25.0, "optimum_ph": 7.5, "genome_size": 4078642.0, "gc_content": 63.5, "coding_genes": 3519.75, "rRNA16S_genes": 4.0, "tRNA_genes": 48.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "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", "linens", "ATCC", "9172" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }