{ "type": "genome", "identifier": "GCF_001884065.1", "organism": "Bacillus proteolyticus", "title": "Bacillus proteolyticus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Third Institute of Oceanography, Key Laboratory of Marine Biogenetic Resources", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001884065.1", "bioproject": "PRJNA224116", "biosample": "SAMN05231663", "wgs_master": "MACH00000000.1", "refseq_category": "reference genome", "taxid": "2026192", "species_taxid": "2026192", "organism_name": "Bacillus proteolyticus", "infraspecific_name": "strain=TD42", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/11/18", "asm_name": "ASM188406v1", "asm_submitter": "The Third Institute of Oceanography, Key Laboratory of Marine Biogenetic Resources", "gbrs_paired_asm": "GCA_001884065.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/884/065/GCF_001884065.1_ASM188406v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5859329", "genome_size_ungapped": "5859329", "gc_percent": "35.000000", "replicon_count": "0", "scaffold_count": "170", "contig_count": "170", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2023-04-23", "total_gene_count": "6155", "protein_coding_gene_count": "5749", "non_coding_gene_count": "30", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-11-18", "dateModified": "2016-11-18", "datePublished": "2016-11-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Bacillus proteolyticus" ], "sample_taxid": [ "2026192" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean" ], "sample_host_location_id": [], "data_size": "1.649 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)": "5859329", "Number of Sequences": "170", "Longest Sequences (bp)": "417517", "N50 (bp)": "131211", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "35.2", "Number of CDSs": "6026", "Average Protein Length": "264.0", "Coding Ratio (%)": "81.5", "Number of rRNAs": "3", "Number of tRNAs": "17", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bacillus proteolyticus", "strain": "strain=TD42", "accession": "GCA_001884065.1", "taxid": 2026192, "species_taxid": 2026192, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1889, "total_fragments": 1891, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bacillus nitratireducens", "strain": "strain=4049", "accession": "GCA_001884135.1", "taxid": 2026193, "species_taxid": 2026193, "relation_to_type": "type", "validated": true, "ani": 94.8501, "matched_fragments": 1598, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus mycoides", "strain": "strain=ATCC 6462", "accession": "GCA_000832605.1", "taxid": 1405, "species_taxid": 1405, "relation_to_type": "type", "validated": true, "ani": 93.0253, "matched_fragments": 1571, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus mycoides", "strain": "strain=DSM 2048", "accession": "GCA_000003925.1", "taxid": 1405, "species_taxid": 1405, "relation_to_type": "type", "validated": true, "ani": 92.9501, "matched_fragments": 1570, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus mycoides", "strain": "strain=DSM 2048", "accession": "GCA_022630575.1", "taxid": 1405, "species_taxid": 1405, "relation_to_type": "type", "validated": true, "ani": 92.911, "matched_fragments": 1540, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus toyonensis", "strain": "strain=BCT-7112", "accession": "GCA_000496285.1", "taxid": 155322, "species_taxid": 155322, "relation_to_type": "type", "validated": true, "ani": 90.8825, "matched_fragments": 1406, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus luti", "strain": "strain=TD41", "accession": "GCA_001884105.1", "taxid": 2026191, "species_taxid": 2026191, "relation_to_type": "type", "validated": true, "ani": 90.4232, "matched_fragments": 1409, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus sanguinis", "strain": "strain=BML-BC004", "accession": "GCA_018332475.1", "taxid": 2817476, "species_taxid": 2817476, "relation_to_type": "type", "validated": true, "ani": 90.0763, "matched_fragments": 1277, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus tropicus", "strain": "strain=N24", "accession": "GCA_001884035.1", "taxid": 2026188, "species_taxid": 2026188, "relation_to_type": "type", "validated": true, "ani": 90.0458, "matched_fragments": 1438, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus anthracis", "strain": "strain=Vollum", "accession": "GCA_022221345.1", "taxid": 1392, "species_taxid": 1392, "relation_to_type": "type", "validated": true, "ani": 89.7482, "matched_fragments": 1454, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus anthracis", "strain": "strain=Vollum", "accession": "GCA_000167275.1", "taxid": 1392, "species_taxid": 1392, "relation_to_type": "type", "validated": true, "ani": 89.7347, "matched_fragments": 1428, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacillus thuringiensis", "strain": "strain=ATCC 10792", "accession": "GCA_002119445.1", "taxid": 1428, "species_taxid": 1428, "relation_to_type": "suspected-type", "validated": true, "ani": 89.7227, "matched_fragments": 1469, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gottfriedia endophyticus", "strain": "strain=RG28", "accession": "GCA_017814275.1", "taxid": 2820819, "species_taxid": 2820819, "relation_to_type": "type", "validated": true, "ani": 77.2086, "matched_fragments": 169, "total_fragments": 1891, "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": 76.988, "matched_fragments": 102, "total_fragments": 1891, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001884065.1", "gtdb_species": "s__Bacillus_A proteolyticus", "ani": 100.0, "matched_fragments": 1889, "total_fragments": 1891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.1182, "mean_intra_species_ani": "98.61", "min_intra_species_ani": "98.37", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_002574955.1", "gtdb_species": "s__Bacillus_A cereus_AT", "ani": 95.0262, "matched_fragments": 1588, "total_fragments": 1891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.1182, "mean_intra_species_ani": "99.26", "min_intra_species_ani": "96.80", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.81", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_001884135.1", "gtdb_species": "s__Bacillus_A nitratireducens", "ani": 94.8318, "matched_fragments": 1600, "total_fragments": 1891, "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": "98.14", "min_intra_species_ani": "95.62", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 78, "status": "-" }, { "accession": "GCF_001757995.1", "gtdb_species": "s__Bacillus_A mycoides_B", "ani": 93.0341, "matched_fragments": 1589, "total_fragments": 1891, "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": "99.94", "min_intra_species_ani": "99.86", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000832605.1", "gtdb_species": "s__Bacillus_A mycoides", "ani": 93.0301, "matched_fragments": 1570, "total_fragments": 1891, "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": "98.01", "min_intra_species_ani": "96.59", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.83", "num_clustered_genomes": 125, "status": "-" }, { "accession": "GCA_018966865.1", "gtdb_species": "s__Bacillus_A sp018966865", "ani": 92.8578, "matched_fragments": 1494, "total_fragments": 1891, "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": "96.14", "min_intra_species_ani": "96.14", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_007673305.1", "gtdb_species": "s__Bacillus_A mycoides_C", "ani": 92.7984, "matched_fragments": 1440, "total_fragments": 1891, "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": "95.83", "min_intra_species_ani": "95.78", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.81", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000291355.1", "gtdb_species": "s__Bacillus_A cereus_O", "ani": 92.7626, "matched_fragments": 1448, "total_fragments": 1891, "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": "97.56", "min_intra_species_ani": "96.56", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.83", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_018742245.1", "gtdb_species": "s__Bacillus_A cereus_U", "ani": 92.6781, "matched_fragments": 1493, "total_fragments": 1891, "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": "97.53", "min_intra_species_ani": "95.81", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.84", "num_clustered_genomes": 34, "status": "-" }, { "accession": "GCF_002975175.1", "gtdb_species": "s__Bacillus_A sp002975175", "ani": 92.3767, "matched_fragments": 1540, "total_fragments": 1891, "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_015071065.1", "gtdb_species": "s__Bacillus_A cereus_BA", "ani": 92.3356, "matched_fragments": 1503, "total_fragments": 1891, "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": "97.35", "min_intra_species_ani": "97.35", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001884235.1", "gtdb_species": "s__Bacillus_A paramycoides", "ani": 91.0902, "matched_fragments": 1475, "total_fragments": 1891, "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": "97.72", "min_intra_species_ani": "97.18", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.85", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_002577405.1", "gtdb_species": "s__Bacillus_A cereus_AU", "ani": 90.7963, "matched_fragments": 1412, "total_fragments": 1891, "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": "98.54", "min_intra_species_ani": "96.63", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.85", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_002564555.1", "gtdb_species": "s__Bacillus_A cereus_K", "ani": 90.6469, "matched_fragments": 1379, "total_fragments": 1891, "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": "98.77", "min_intra_species_ani": "97.26", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.89", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_900094905.1", "gtdb_species": "s__Bacillus_A cereus_AG", "ani": 90.4221, "matched_fragments": 1419, "total_fragments": 1891, "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": "99.51", "min_intra_species_ani": "99.13", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001583695.1", "gtdb_species": "s__Bacillus_A wiedmannii", "ani": 90.4021, "matched_fragments": 1463, "total_fragments": 1891, "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": "96.52", "min_intra_species_ani": "95.09", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 225, "status": "-" }, { "accession": "GCF_008923725.1", "gtdb_species": "s__Bacillus_A sp008923725", "ani": 90.1111, "matched_fragments": 1454, "total_fragments": 1891, "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": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001884035.1", "gtdb_species": "s__Bacillus_A tropicus", "ani": 90.0659, "matched_fragments": 1436, "total_fragments": 1891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.3658, "mean_intra_species_ani": "96.52", "min_intra_species_ani": "95.65", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.83", "num_clustered_genomes": 109, "status": "-" }, { "accession": "GCF_000742895.1", "gtdb_species": "s__Bacillus_A anthracis", "ani": 89.7586, "matched_fragments": 1455, "total_fragments": 1891, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales;f__Bacillaceae_G;g__Bacillus_A", "ani_circumscription_radius": 95.2518, "mean_intra_species_ani": "99.29", "min_intra_species_ani": "95.34", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.83", "num_clustered_genomes": 417, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.176, "cell_length": 0.387, "doubling_h": -0.134, "growth_tmp": 31.412, "optimum_tmp": 33.64, "optimum_ph": 7.746, "genome_size": 4544138.117, "gc_content": 40.577, "coding_genes": 4334.002, "rRNA16S_genes": 9.859, "tRNA_genes": 88.223, "gram_stain": 0.993, "sporulation": 0.975, "motility": 0.841, "range_salinity": 0.6, "facultative_respiration": 0.16, "anaerobic_respiration": 0.011, "aerobic_respiration": 0.827, "mesophilic_range_tmp": 0.928, "thermophilic_range_tmp": 0.053, "psychrophilic_range_tmp": 0.017, "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": [ "Bacillus", "proteolyticus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }