{ "type": "genome", "identifier": "GCF_002009555.1", "organism": "Heyndrickxia oleronia", "title": "Heyndrickxia oleronia", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute for Communicable Diseases", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002009555.1", "bioproject": "PRJNA224116", "biosample": "SAMN06237156", "wgs_master": "MTLA00000000.1", "refseq_category": "na", "taxid": "38875", "species_taxid": "38875", "organism_name": "Heyndrickxia oleronia", "infraspecific_name": "strain=DSM 9356", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/03/02", "asm_name": "ASM200955v1", "asm_submitter": "National Institute for Communicable Diseases", "gbrs_paired_asm": "GCA_002009555.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/009/555/GCF_002009555.1_ASM200955v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5083966", "genome_size_ungapped": "5083384", "gc_percent": "35.000000", "replicon_count": "0", "scaffold_count": "587", "contig_count": "587", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002009555.1-RS_2024_03_30", "annotation_date": "2024-03-30", "total_gene_count": "5246", "protein_coding_gene_count": "4959", "non_coding_gene_count": "138", "pubmed_id": "28386530" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-03-02", "dateModified": "2017-03-02", "datePublished": "2017-03-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Heyndrickxia oleronia" ], "sample_taxid": [ "38875" ], "sample_host_organism": [ "Reticulitermes santonensis" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "France" ], "sample_host_location_id": [], "data_size": "1.440 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5083966", "Number of Sequences": "587", "Longest Sequences (bp)": "90648", "N50 (bp)": "15135", "Gap Ratio (%)": "0.012530", "GCcontent (%)": "35.0", "Number of CDSs": "4900", "Average Protein Length": "274.5", "Coding Ratio (%)": "79.4", "Number of rRNAs": "9", "Number of tRNAs": "118", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Heyndrickxia oleronia", "strain": "strain=DSM 9356", "accession": "GCA_002009555.1", "taxid": 38875, "species_taxid": 38875, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1388, "total_fragments": 1411, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Heyndrickxia oleronia", "strain": "strain=DSM 9356", "accession": "GCA_017809215.1", "taxid": 38875, "species_taxid": 38875, "relation_to_type": "type", "validated": true, "ani": 99.9766, "matched_fragments": 1407, "total_fragments": 1411, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Heyndrickxia oleronia", "strain": "strain=DSM 9356", "accession": "GCA_025263665.1", "taxid": 38875, "species_taxid": 38875, "relation_to_type": "type", "validated": true, "ani": 99.9678, "matched_fragments": 1406, "total_fragments": 1411, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lysinibacillus composti", "strain": "strain=DSM 24785", "accession": "GCA_016908465.1", "taxid": 720633, "species_taxid": 720633, "relation_to_type": "type", "validated": true, "ani": 80.213, "matched_fragments": 83, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysinibacillus composti", "strain": "strain=MCCC 1A13240", "accession": "GCA_003856865.1", "taxid": 720633, "species_taxid": 720633, "relation_to_type": "type", "validated": true, "ani": 80.2017, "matched_fragments": 85, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Heyndrickxia sporothermodurans", "strain": "strain=DSM 10599", "accession": "GCA_003055085.1", "taxid": 46224, "species_taxid": 46224, "relation_to_type": "type", "validated": true, "ani": 79.2915, "matched_fragments": 371, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Heyndrickxia sporothermodurans", "strain": "strain=DSM 10599", "accession": "GCA_016785185.1", "taxid": 46224, "species_taxid": 46224, "relation_to_type": "type", "validated": true, "ani": 79.2869, "matched_fragments": 396, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Margalitia camelliae", "strain": "strain=7578-1", "accession": "GCA_002844575.1", "taxid": 1707093, "species_taxid": 1707093, "relation_to_type": "type", "validated": true, "ani": 77.5899, "matched_fragments": 245, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus dafuensis", "strain": "strain=FJAT-25496", "accession": "GCA_007995155.1", "taxid": 1742359, "species_taxid": 1742359, "relation_to_type": "type", "validated": true, "ani": 77.4154, "matched_fragments": 123, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Metabacillus bambusae", "strain": "strain=BG109", "accession": "GCA_017497975.1", "taxid": 2795218, "species_taxid": 2795218, "relation_to_type": "type", "validated": true, "ani": 77.3037, "matched_fragments": 112, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neobacillus mesonae", "strain": "strain=FJAT-13985", "accession": "GCA_001636315.1", "taxid": 1193713, "species_taxid": 1193713, "relation_to_type": "type", "validated": true, "ani": 77.2277, "matched_fragments": 100, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neobacillus kokaensis", "strain": "strain=LOB 377", "accession": "GCA_014656545.1", "taxid": 2759023, "species_taxid": 2759023, "relation_to_type": "type", "validated": true, "ani": 77.2189, "matched_fragments": 102, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sutcliffiella halmapala", "strain": "strain=DSM 8723", "accession": "GCA_002019665.1", "taxid": 79882, "species_taxid": 79882, "relation_to_type": "type", "validated": true, "ani": 77.1257, "matched_fragments": 88, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neobacillus citreus", "strain": "strain=FJAT-50051", "accession": "GCA_018343545.2", "taxid": 2833578, "species_taxid": 2833578, "relation_to_type": "type", "validated": true, "ani": 77.0892, "matched_fragments": 86, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus suaedaesalsae", "strain": "strain=RD4P76", "accession": "GCA_016890225.1", "taxid": 2810349, "species_taxid": 2810349, "relation_to_type": "type", "validated": true, "ani": 76.6467, "matched_fragments": 85, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Metabacillus iocasae", "strain": "strain=DSM 104297", "accession": "GCA_016909075.1", "taxid": 2291674, "species_taxid": 2291674, "relation_to_type": "type", "validated": true, "ani": 76.4757, "matched_fragments": 80, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Priestia megaterium", "strain": "strain=NBRC 15308", "accession": "GCA_001591525.1", "taxid": 1404, "species_taxid": 1404, "relation_to_type": "type", "validated": true, "ani": 76.1779, "matched_fragments": 87, "total_fragments": 1411, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_017809215.1", "gtdb_species": "s__Heyndrickxia oleronia", "ani": 99.9766, "matched_fragments": 1407, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__Bacillaceae_C;g__Heyndrickxia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.68", "min_intra_species_ani": "97.33", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.89", "num_clustered_genomes": 7, "status": "conclusive" }, { "accession": "GCF_016908465.1", "gtdb_species": "s__Ureibacillus composti", "ani": 80.213, "matched_fragments": 83, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Ureibacillus", "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_016772275.1", "gtdb_species": "s__Heyndrickxia vini", "ani": 79.2536, "matched_fragments": 460, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__Bacillaceae_C;g__Heyndrickxia", "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_016756695.1", "gtdb_species": "s__Heyndrickxia sporothermodurans", "ani": 79.2464, "matched_fragments": 417, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__Bacillaceae_C;g__Heyndrickxia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.73", "min_intra_species_ani": "97.95", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.84", "num_clustered_genomes": 38, "status": "-" }, { "accession": "GCF_001420715.1", "gtdb_species": "s__Margalitia shackletonii", "ani": 79.1019, "matched_fragments": 288, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__Bacillaceae_C;g__Margalitia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.16", "min_intra_species_ani": "98.74", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_018333075.1", "gtdb_species": "s__Heyndrickxia sporothermodurans_A", "ani": 78.9815, "matched_fragments": 501, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__Bacillaceae_C;g__Heyndrickxia", "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": "GCA_002261155.1", "gtdb_species": "s__FJAT-46582 sp002261155", "ani": 77.9613, "matched_fragments": 69, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__Domibacillaceae;g__FJAT-46582", "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_018343615.1", "gtdb_species": "s__Margalitia sp018343615", "ani": 77.8378, "matched_fragments": 228, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__Bacillaceae_C;g__Margalitia", "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": "GCA_019219025.1", "gtdb_species": "s__Neobacillus sp019219025", "ani": 77.6424, "matched_fragments": 111, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__DSM-18226;g__Neobacillus", "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_002844575.1", "gtdb_species": "s__Margalitia camelliae", "ani": 77.5931, "matched_fragments": 246, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__Bacillaceae_C;g__Margalitia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.53", "min_intra_species_ani": "99.53", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_007995155.1", "gtdb_species": "s__Cytobacillus dafuensis", "ani": 77.4398, "matched_fragments": 122, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__DSM-18226;g__Cytobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002019635.1", "gtdb_species": "s__Metabacillus halosaccharovorans", "ani": 77.1859, "matched_fragments": 110, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae;g__Metabacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.47", "min_intra_species_ani": "95.47", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000813125.1", "gtdb_species": "s__Mesobacillus selenatarsenatis", "ani": 77.1821, "matched_fragments": 55, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__DSM-18226;g__Mesobacillus", "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_002797375.1", "gtdb_species": "s__FJAT-46582 sp002797375", "ani": 77.1356, "matched_fragments": 85, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__Domibacillaceae;g__FJAT-46582", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.55", "min_intra_species_ani": "96.55", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002019665.1", "gtdb_species": "s__Sutcliffiella_A halmapala", "ani": 77.1257, "matched_fragments": 88, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_I;g__Sutcliffiella_A", "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_018343665.1", "gtdb_species": "s__Cytobacillus sp018343665", "ani": 77.0721, "matched_fragments": 121, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__DSM-18226;g__Cytobacillus", "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_002560985.1", "gtdb_species": "s__Bacillus_A sp002560985", "ani": 76.9948, "matched_fragments": 76, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "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_010975035.1", "gtdb_species": "s__Neobacillus thermocopriae", "ani": 76.7904, "matched_fragments": 87, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__DSM-18226;g__Neobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.41", "min_intra_species_ani": "95.38", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000832985.1", "gtdb_species": "s__Priestia megaterium", "ani": 76.5767, "matched_fragments": 92, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_H;g__Priestia", "ani_circumscription_radius": 95.5311, "mean_intra_species_ani": "96.82", "min_intra_species_ani": "95.69", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.73", "num_clustered_genomes": 151, "status": "-" }, { "accession": "GCF_016909075.1", "gtdb_species": "s__Priestia iocasae", "ani": 76.4184, "matched_fragments": 79, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_H;g__Priestia", "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_018424685.1", "gtdb_species": "s__Mesobacillus boroniphilus_A", "ani": 76.3398, "matched_fragments": 70, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_B;f__DSM-18226;g__Mesobacillus", "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": "GCA_016841285.1", "gtdb_species": "s__Calidifontibacillus sp016841285", "ani": 76.2047, "matched_fragments": 65, "total_fragments": 1411, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_C;f__Bacillaceae_J;g__Calidifontibacillus", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Heyndrickxia", "oleronia" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }