{ "type": "genome", "identifier": "GCF_003710815.1", "organism": "Brevibacillus centrosporus", "title": "Brevibacillus centrosporus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "NCAUR-ARS-USDA", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003710815.1", "bioproject": "PRJNA224116", "biosample": "SAMN10330924", "wgs_master": "RHHP00000000.1", "refseq_category": "na", "taxid": "54910", "species_taxid": "54910", "organism_name": "Brevibacillus centrosporus", "infraspecific_name": "strain=NRRL NRS 664", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/11/04", "asm_name": "ASM371081v1", "asm_submitter": "NCAUR-ARS-USDA", "gbrs_paired_asm": "GCA_003710815.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/710/815/GCF_003710815.1_ASM371081v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5918584", "genome_size_ungapped": "5918584", "gc_percent": "50.000000", "replicon_count": "0", "scaffold_count": "71", "contig_count": "71", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003710815.1-RS_2024_09_23", "annotation_date": "2024-09-23", "total_gene_count": "6044", "protein_coding_gene_count": "5782", "non_coding_gene_count": "136", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-11-04", "dateModified": "2018-11-04", "datePublished": "2018-11-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Brevibacillus centrosporus" ], "sample_taxid": [ "54910" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "1.694 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5918584", "Number of Sequences": "71", "Longest Sequences (bp)": "641628", "N50 (bp)": "204661", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "50.0", "Number of CDSs": "5970", "Average Protein Length": "290.3", "Coding Ratio (%)": "87.9", "Number of rRNAs": "0", "Number of tRNAs": "121", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Brevibacillus centrosporus", "strain": "strain=NRRL NRS 664", "accession": "GCA_003710815.1", "taxid": 54910, "species_taxid": 54910, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1937, "total_fragments": 1940, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Brevibacillus centrosporus", "strain": "strain=NBRC 15540", "accession": "GCA_006540045.1", "taxid": 54910, "species_taxid": 54910, "relation_to_type": "type", "validated": true, "ani": 99.9777, "matched_fragments": 1863, "total_fragments": 1940, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Brevibacillus nitrificans", "strain": "strain=JCM 15774", "accession": "GCA_003710965.1", "taxid": 651560, "species_taxid": 651560, "relation_to_type": "type", "validated": true, "ani": 95.9767, "matched_fragments": 1736, "total_fragments": 1940, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Brevibacillus choshinensis", "strain": "strain=DSM 8552", "accession": "GCA_001420695.1", "taxid": 54911, "species_taxid": 54911, "relation_to_type": "type", "validated": true, "ani": 82.3223, "matched_fragments": 1207, "total_fragments": 1940, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacillus formosus", "strain": "strain=NRRL NRS-863", "accession": "GCA_003013405.1", "taxid": 54913, "species_taxid": 54913, "relation_to_type": "type", "validated": true, "ani": 79.7008, "matched_fragments": 591, "total_fragments": 1940, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacillus reuszeri", "strain": "strain=DSM 9887", "accession": "GCA_001187725.1", "taxid": 54915, "species_taxid": 54915, "relation_to_type": "type", "validated": true, "ani": 79.6509, "matched_fragments": 700, "total_fragments": 1940, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacillus agri", "strain": "strain=NBRC 15538", "accession": "GCA_006540025.1", "taxid": 51101, "species_taxid": 51101, "relation_to_type": "type", "validated": true, "ani": 79.6056, "matched_fragments": 649, "total_fragments": 1940, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacillus fortis", "strain": "strain=NRRL NRS-1210", "accession": "GCA_003013395.1", "taxid": 2126352, "species_taxid": 2126352, "relation_to_type": "type", "validated": true, "ani": 79.5164, "matched_fragments": 629, "total_fragments": 1940, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Brevibacillus invocatus", "strain": "strain=JCM 12215", "accession": "GCA_003710915.1", "taxid": 173959, "species_taxid": 173959, "relation_to_type": "type", "validated": true, "ani": 79.0321, "matched_fragments": 514, "total_fragments": 1940, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003710815.1", "gtdb_species": "s__Brevibacillus centrosporus", "ani": 100.0, "matched_fragments": 1937, "total_fragments": 1940, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Brevibacillales;f__Brevibacillaceae;g__Brevibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.44", "min_intra_species_ani": "95.98", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_016811915.1", "gtdb_species": "s__Brevibacillus choshinensis_A", "ani": 82.4622, "matched_fragments": 1144, "total_fragments": 1940, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Brevibacillales;f__Brevibacillaceae;g__Brevibacillus", "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_001420695.1", "gtdb_species": "s__Brevibacillus choshinensis", "ani": 82.3223, "matched_fragments": 1207, "total_fragments": 1940, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Brevibacillales;f__Brevibacillaceae;g__Brevibacillus", "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_003710905.1", "gtdb_species": "s__Brevibacillus parabrevis", "ani": 79.7654, "matched_fragments": 661, "total_fragments": 1940, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Brevibacillales;f__Brevibacillaceae;g__Brevibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.83", "min_intra_species_ani": "96.13", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_900637055.1", "gtdb_species": "s__Brevibacillus brevis", "ani": 79.724, "matched_fragments": 612, "total_fragments": 1940, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Brevibacillales;f__Brevibacillaceae;g__Brevibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.71", "min_intra_species_ani": "98.86", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.96", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_003013405.1", "gtdb_species": "s__Brevibacillus formosus", "ani": 79.7097, "matched_fragments": 590, "total_fragments": 1940, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Brevibacillales;f__Brevibacillaceae;g__Brevibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.07", "min_intra_species_ani": "95.45", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_004117055.1", "gtdb_species": "s__Brevibacillus agri", "ani": 79.7085, "matched_fragments": 680, "total_fragments": 1940, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Brevibacillales;f__Brevibacillaceae;g__Brevibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", "min_intra_species_ani": "99.18", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.89", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_002897295.1", "gtdb_species": "s__Brevibacillus reuszeri_A", "ani": 79.6838, "matched_fragments": 701, "total_fragments": 1940, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Brevibacillales;f__Brevibacillaceae;g__Brevibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.18", "min_intra_species_ani": "96.18", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001187725.1", "gtdb_species": "s__Brevibacillus reuszeri", "ani": 79.6584, "matched_fragments": 699, "total_fragments": 1940, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Brevibacillales;f__Brevibacillaceae;g__Brevibacillus", "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_003013475.1", "gtdb_species": "s__Brevibacillus porteri", "ani": 79.6402, "matched_fragments": 611, "total_fragments": 1940, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Brevibacillales;f__Brevibacillaceae;g__Brevibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.63", "min_intra_species_ani": "95.52", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_003013395.1", "gtdb_species": "s__Brevibacillus fortis", "ani": 79.5001, "matched_fragments": 631, "total_fragments": 1940, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Brevibacillales;f__Brevibacillaceae;g__Brevibacillus", "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": -0.302, "cell_length": 0.301, "doubling_h": 0.285, "growth_tmp": 30.0, "optimum_tmp": 39.136, "optimum_ph": 6.585, "genome_size": 6242354.0, "gc_content": 49.516, "coding_genes": 5306.866, "rRNA16S_genes": 14.666, "tRNA_genes": 121.916, "gram_stain": 1.0, "sporulation": 1.0, "motility": 1.0, "range_salinity": 1.0, "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": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Brevibacillus", "centrosporus" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }