{ "type": "genome", "identifier": "GCF_002216795.1", "organism": "Brachybacterium avium", "title": "Brachybacterium avium", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Kyung Hee University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002216795.1", "bioproject": "PRJNA224116", "biosample": "SAMN07303506", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2017485", "species_taxid": "2017485", "organism_name": "Brachybacterium avium", "infraspecific_name": "strain=VR2415", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/07/12", "asm_name": "ASM221679v1", "asm_submitter": "Kyung Hee University", "gbrs_paired_asm": "GCA_002216795.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/216/795/GCF_002216795.1_ASM221679v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3568502", "genome_size_ungapped": "3568502", "gc_percent": "70.500000", "replicon_count": "3", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002216795.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "3301", "protein_coding_gene_count": "3131", "non_coding_gene_count": "64", "pubmed_id": "30131788" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-07-12", "dateModified": "2017-07-12", "datePublished": "2017-07-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Brachybacterium avium" ], "sample_taxid": [ "2017485" ], "sample_host_organism": [ "Vultur gryphus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "0.955 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)": "3568502", "Number of Sequences": "3", "Longest Sequences (bp)": "3459731", "N50 (bp)": "3459731", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.4", "Number of CDSs": "3342", "Average Protein Length": "321.4", "Coding Ratio (%)": "90.3", "Number of rRNAs": "9", "Number of tRNAs": "58", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Brachybacterium avium", "strain": "strain=VR2415", "accession": "GCA_002216795.1", "taxid": 2017485, "species_taxid": 2017485, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1188, "total_fragments": 1188, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Brachybacterium vulturis", "strain": "strain=VM2412", "accession": "GCA_002407185.1", "taxid": 2017484, "species_taxid": 2017484, "relation_to_type": "type", "validated": true, "ani": 90.5675, "matched_fragments": 995, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brachybacterium faecium", "strain": "strain=DSM 4810", "accession": "GCA_000023405.1", "taxid": 43669, "species_taxid": 43669, "relation_to_type": "type", "validated": true, "ani": 85.4887, "matched_fragments": 869, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brachybacterium ginsengisoli", "strain": "strain=DCY80", "accession": "GCA_002407065.1", "taxid": 1331682, "species_taxid": 1331682, "relation_to_type": "type", "validated": true, "ani": 85.4172, "matched_fragments": 884, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brachybacterium massiliense", "strain": "strain=mt5", "accession": "GCA_900184245.1", "taxid": 1755098, "species_taxid": 1755098, "relation_to_type": "type", "validated": true, "ani": 84.6564, "matched_fragments": 868, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brachybacterium saurashtrense", "strain": "strain=DSM 23186", "accession": "GCA_003994295.1", "taxid": 556288, "species_taxid": 556288, "relation_to_type": "type", "validated": true, "ani": 84.2984, "matched_fragments": 842, "total_fragments": 1188, "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": 83.4165, "matched_fragments": 759, "total_fragments": 1188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brachybacterium 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"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_002407065.1", "gtdb_species": "s__Brachybacterium ginsengisoli", "ani": 85.4313, "matched_fragments": 883, "total_fragments": 1188, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermabacteraceae;g__Brachybacterium", "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_900184245.1", "gtdb_species": "s__Brachybacterium massiliense", "ani": 84.6486, "matched_fragments": 871, "total_fragments": 1188, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Dermabacteraceae;g__Brachybacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", 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"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": -0.176, "cell_length": 0.027, "doubling_h": null, "growth_tmp": 28.687, "optimum_tmp": 30.638, "optimum_ph": 7.25, "genome_size": 3371717.991, "gc_content": 72.133, "coding_genes": 3207.666, "rRNA16S_genes": 3.0, "tRNA_genes": 50.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.076, "anaerobic_respiration": 0.076, "aerobic_respiration": 0.846, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 0.333, "coccus_cell_shape": 0.5, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.166, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Brachybacterium", "avium" ], "quality": 5, "quality_label": 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