{ "type": "genome", "identifier": "GCF_006542275.1", "organism": "Saccharibacillus brassicae", "title": "Saccharibacillus brassicae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Korea Research Institute of Bioscience and Biotechnology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_006542275.1", "bioproject": "PRJNA224116", "biosample": "SAMN11812191", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2583377", "species_taxid": "2583377", "organism_name": "Saccharibacillus brassicae", "infraspecific_name": "strain=ATSA2", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/07/02", "asm_name": "ASM654227v1", "asm_submitter": "Korea Research Institute of Bioscience and Biotechnology", "gbrs_paired_asm": "GCA_006542275.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/006/542/275/GCF_006542275.1_ASM654227v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5619468", "genome_size_ungapped": "5619468", "gc_percent": "58.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_006542275.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "4753", "protein_coding_gene_count": "4614", "non_coding_gene_count": "104", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-07-02", "dateModified": "2019-07-02", "datePublished": "2019-07-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Saccharibacillus brassicae" ], "sample_taxid": [ "2583377" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "1.559 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5619468", "Number of Sequences": "1", "Longest Sequences (bp)": "5619468", "N50 (bp)": "5619468", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.4", "Number of CDSs": "4817", "Average Protein Length": "329.7", "Coding Ratio (%)": "84.8", "Number of rRNAs": "30", "Number of tRNAs": "74", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Saccharibacillus brassicae", "strain": "strain=ATSA2", "accession": "GCA_006542275.1", "taxid": 2583377, "species_taxid": 2583377, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1873, "total_fragments": 1873, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Saccharibacillus qingshengii", "strain": "strain=JCM 31172", "accession": "GCA_013185195.1", "taxid": 1763540, "species_taxid": 1763540, "relation_to_type": "type", "validated": true, "ani": 85.4034, "matched_fragments": 1338, "total_fragments": 1873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharibacillus deserti", "strain": "strain=WLJ055", "accession": "GCA_013618475.1", "taxid": 1634444, "species_taxid": 1634444, "relation_to_type": "type", "validated": true, "ani": 85.2047, "matched_fragments": 1348, "total_fragments": 1873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharibacillus deserti", "strain": "strain=KCTC 33693", "accession": "GCA_013185225.1", "taxid": 1634444, "species_taxid": 1634444, "relation_to_type": "type", "validated": true, "ani": 85.2044, "matched_fragments": 1348, "total_fragments": 1873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharibacillus alkalitolerans", "strain": "strain=VR-M41", "accession": "GCA_011090185.1", "taxid": 2705290, "species_taxid": 2705290, "relation_to_type": "type", "validated": true, "ani": 82.9831, "matched_fragments": 1252, "total_fragments": 1873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus macerans", "strain": "strain=ATCC 8244", "accession": "GCA_000746875.1", "taxid": 44252, "species_taxid": 44252, "relation_to_type": "type", "validated": true, "ani": 77.3819, "matched_fragments": 241, "total_fragments": 1873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus rhizophilus", "strain": "strain=7197", "accession": "GCA_003854965.1", "taxid": 1850366, "species_taxid": 1850366, "relation_to_type": "type", "validated": true, "ani": 77.3743, "matched_fragments": 160, "total_fragments": 1873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus artemisiicola", "strain": "strain=MWE-103", "accession": "GCA_017652985.1", "taxid": 1172618, "species_taxid": 1172618, "relation_to_type": "type", "validated": true, "ani": 77.0493, "matched_fragments": 302, "total_fragments": 1873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus timonensis", "strain": "strain=DSM 16943", "accession": "GCA_022427145.1", "taxid": 225915, "species_taxid": 225915, "relation_to_type": "type", "validated": true, "ani": 77.0027, "matched_fragments": 196, "total_fragments": 1873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paenibacillus darwinianus", "strain": "strain=Br", "accession": "GCA_000598065.1", "taxid": 1380763, "species_taxid": 1380763, "relation_to_type": "type", "validated": true, "ani": 76.8888, "matched_fragments": 123, "total_fragments": 1873, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_006542275.1", "gtdb_species": "s__Saccharibacillus brassicae", "ani": 100.0, "matched_fragments": 1873, "total_fragments": 1873, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Saccharibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.06", "min_intra_species_ani": "97.06", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_013185195.1", "gtdb_species": "s__Saccharibacillus qingshengii", "ani": 85.3791, "matched_fragments": 1341, "total_fragments": 1873, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Saccharibacillus", "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_013618475.1", "gtdb_species": "s__Saccharibacillus deserti", "ani": 85.2024, "matched_fragments": 1348, "total_fragments": 1873, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Saccharibacillus", "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_011090185.1", "gtdb_species": "s__Saccharibacillus alkalitolerans", "ani": 82.9754, "matched_fragments": 1253, "total_fragments": 1873, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Saccharibacillus", "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_002205895.1", "gtdb_species": "s__Saccharibacillus sp002205895", "ani": 82.4169, "matched_fragments": 1242, "total_fragments": 1873, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Saccharibacillus", "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_013185185.1", "gtdb_species": "s__Saccharibacillus endophyticus", "ani": 81.6589, "matched_fragments": 1182, "total_fragments": 1873, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Saccharibacillus", "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_000378145.1", "gtdb_species": "s__Saccharibacillus kuerlensis", "ani": 80.3942, "matched_fragments": 896, "total_fragments": 1873, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Paenibacillales;f__Paenibacillaceae;g__Saccharibacillus", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.222, "cell_length": 0.259, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 30.75, "optimum_ph": 7.0, "genome_size": 5387700.0, "gc_content": 52.7, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 1.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.5, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.5, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Saccharibacillus", "brassicae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }