{ "type": "genome", "identifier": "GCF_003515705.1", "organism": "Oceanobacillus profundus", "title": "Oceanobacillus profundus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Third Institute of Oceanography, State of Oceanic Administration", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003515705.1", "bioproject": "PRJNA224116", "biosample": "SAMN09901140", "wgs_master": "QWEH00000000.1", "refseq_category": "reference genome", "taxid": "372463", "species_taxid": "372463", "organism_name": "Oceanobacillus profundus", "infraspecific_name": "strain=DSM 18246", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/09/10", "asm_name": "ASM351570v1", "asm_submitter": "Third Institute of Oceanography, State of Oceanic Administration", "gbrs_paired_asm": "GCA_003515705.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/515/705/GCF_003515705.1_ASM351570v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4778684", "genome_size_ungapped": "4778684", "gc_percent": "37.500000", "replicon_count": "0", "scaffold_count": "63", "contig_count": "63", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003515705.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "4734", "protein_coding_gene_count": "4550", "non_coding_gene_count": "119", "pubmed_id": "17267988" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-09-10", "dateModified": "2018-09-10", "datePublished": "2018-09-10", "_annotation": { "sample_count": 1, "sample_organism": [ "Oceanobacillus profundus" ], "sample_taxid": [ "372463" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "1.357 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)": "4778684", "Number of Sequences": "63", "Longest Sequences (bp)": "673334", "N50 (bp)": "194705", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "37.6", "Number of CDSs": "4667", "Average Protein Length": "285.5", "Coding Ratio (%)": "83.6", "Number of rRNAs": "9", "Number of tRNAs": "96", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Oceanobacillus profundus", "strain": "strain=DSM 18246", "accession": "GCA_003515705.1", "taxid": 372463, "species_taxid": 372463, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1555, "total_fragments": 1558, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Oceanobacillus profundus", "strain": "strain=CL-MP28", "accession": "GCA_008087205.1", "taxid": 372463, "species_taxid": 372463, "relation_to_type": "type", "validated": true, "ani": 99.9995, "matched_fragments": 1540, "total_fragments": 1558, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Oceanobacillus polygoni", "strain": "strain=SA9", "accession": "GCA_008304605.1", "taxid": 1235259, "species_taxid": 1235259, "relation_to_type": "type", "validated": true, "ani": 87.9098, "matched_fragments": 1159, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus rekensis", "strain": "strain=PT-11", "accession": "GCA_002153375.1", "taxid": 937927, "species_taxid": 937927, "relation_to_type": "type", "validated": true, "ani": 78.5807, "matched_fragments": 335, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus damuensis", "strain": "strain=PT-20", "accession": "GCA_001618145.1", "taxid": 937928, "species_taxid": 937928, "relation_to_type": "type", "validated": true, "ani": 78.4165, "matched_fragments": 315, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus zhaokaii", "strain": "strain=160", "accession": "GCA_003352005.1", "taxid": 2052660, "species_taxid": 2052660, "relation_to_type": "type", "validated": true, "ani": 78.301, "matched_fragments": 235, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus jordanicus", "strain": "strain=GSFE11", "accession": "GCA_022095695.1", "taxid": 2867266, "species_taxid": 2867266, "relation_to_type": "type", "validated": true, "ani": 77.9598, "matched_fragments": 167, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus iheyensis", "strain": "strain=HTE831", "accession": "GCA_000011245.1", "taxid": 182710, "species_taxid": 182710, "relation_to_type": "type", "validated": true, "ani": 77.7967, "matched_fragments": 191, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus bengalensis", "strain": "strain=MCCC 1K00260", "accession": "GCA_003628445.1", "taxid": 1435466, "species_taxid": 1435466, "relation_to_type": "type", "validated": true, "ani": 77.6977, "matched_fragments": 211, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus neutriphilus", "strain": "strain=CGMCC 1.7693", "accession": "GCA_014645515.1", "taxid": 531815, "species_taxid": 531815, "relation_to_type": "type", "validated": true, "ani": 77.496, "matched_fragments": 173, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus salinisoli", "strain": "strain=YIM B00359", "accession": "GCA_009733865.1", "taxid": 2678611, "species_taxid": 2678611, "relation_to_type": "type", "validated": true, "ani": 77.3772, "matched_fragments": 215, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus halophilus", "strain": "strain=DSM 23996", "accession": "GCA_003628505.1", "taxid": 930130, "species_taxid": 930130, "relation_to_type": "type", "validated": true, "ani": 77.208, "matched_fragments": 181, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus sojae", "strain": "strain=NBRC 105379", "accession": "GCA_007991515.1", "taxid": 582851, "species_taxid": 582851, "relation_to_type": "type", "validated": true, "ani": 77.0193, "matched_fragments": 180, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentibacillus amyloliquefaciens", "strain": "strain=LAM0015", "accession": "GCA_001307805.2", "taxid": 1472767, "species_taxid": 1472767, "relation_to_type": "type", "validated": true, "ani": 76.7756, "matched_fragments": 84, "total_fragments": 1558, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003515705.1", "gtdb_species": "s__Oceanobacillus profundus", "ani": 100.0, "matched_fragments": 1555, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.49", "min_intra_species_ani": "99.20", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.85", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_008304605.1", "gtdb_species": "s__Oceanobacillus polygoni", "ani": 87.9214, "matched_fragments": 1158, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002153375.1", "gtdb_species": "s__Oceanobacillus rekensis", "ani": 78.6005, "matched_fragments": 334, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "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_001618145.1", "gtdb_species": "s__Oceanobacillus damuensis", "ani": 78.4343, "matched_fragments": 313, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "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_016908155.1", "gtdb_species": "s__Oceanobacillus caeni", "ani": 78.3653, "matched_fragments": 180, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.65", "min_intra_species_ani": "98.42", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 14, "status": "-" }, { "accession": "GCF_018333215.1", "gtdb_species": "s__Oceanobacillus sp018333215", "ani": 78.1051, "matched_fragments": 193, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "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_000011245.1", "gtdb_species": "s__Oceanobacillus iheyensis", "ani": 77.8121, "matched_fragments": 190, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "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_003628445.1", "gtdb_species": "s__Oceanobacillus bengalensis", "ani": 77.7112, "matched_fragments": 210, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "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_003369565.1", "gtdb_species": "s__Oceanobacillus chungangensis", "ani": 77.7012, "matched_fragments": 238, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "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_014645515.1", "gtdb_species": "s__Oceanobacillus neutriphilus", "ani": 77.4804, "matched_fragments": 174, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "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_009733865.1", "gtdb_species": "s__Oceanobacillus salinisoli", "ani": 77.3583, "matched_fragments": 211, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "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_001659985.1", "gtdb_species": "s__Oceanobacillus sp001659985", "ani": 77.3352, "matched_fragments": 181, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "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_003628505.1", "gtdb_species": "s__Oceanobacillus halophilus", "ani": 77.208, "matched_fragments": 181, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "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_900129485.1", "gtdb_species": "s__Ornithinibacillus halophilus", "ani": 77.1416, "matched_fragments": 148, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Ornithinibacillus", "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_007991515.1", "gtdb_species": "s__Oceanobacillus sojae", "ani": 76.9976, "matched_fragments": 179, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.95", "min_intra_species_ani": "98.95", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001038485.1", "gtdb_species": "s__Ornithinibacillus californiensis", "ani": 76.8502, "matched_fragments": 130, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Ornithinibacillus", "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_009389585.1", "gtdb_species": "s__Oceanobacillus sp009389585", "ani": 76.7212, "matched_fragments": 164, "total_fragments": 1558, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "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": -0.523, "cell_length": 0.146, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 35.0, "optimum_ph": 8.0, "genome_size": 4124338.681, "gc_content": 37.251, "coding_genes": 3521.75, "rRNA16S_genes": 7.0, "tRNA_genes": 67.0, "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": [ "Oceanobacillus", "profundus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }