{ "type": "genome", "identifier": "GCF_000285495.1", "organism": "Oceanobacillus massiliensis str. N'diop", "title": "Oceanobacillus massiliensis str. N'diop", "description": "na", "data type": "Genome sequencing and assembly", "organization": "laboratoire URMITE CNRS 6236", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000285495.1", "bioproject": "PRJNA224116", "biosample": "SAMEA2272754", "wgs_master": "CAER00000000.1", "refseq_category": "reference genome", "taxid": "946235", "species_taxid": "1465765", "organism_name": "Oceanobacillus massiliensis str. N'diop", "infraspecific_name": "strain=Ndiop", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2012/07/19", "asm_name": "ASM28549v1", "asm_submitter": "laboratoire URMITE CNRS 6236", "gbrs_paired_asm": "GCA_000285495.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/285/495/GCF_000285495.1_ASM28549v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3593561", "genome_size_ungapped": "3539128", "gc_percent": "40.500000", "replicon_count": "0", "scaffold_count": "50", "contig_count": "119", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000285495.1-RS_2024_03_15", "annotation_date": "2024-03-15", "total_gene_count": "3574", "protein_coding_gene_count": "3397", "non_coding_gene_count": "87", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2012-07-19", "dateModified": "2012-07-19", "datePublished": "2012-07-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Oceanobacillus massiliensis str. N'diop" ], "sample_taxid": [ "946235" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Senegal" ], "sample_host_location_id": [], "data_size": "1.005 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)": "3591488", "Number of Sequences": "35", "Longest Sequences (bp)": "1188329", "N50 (bp)": "875617", "Gap Ratio (%)": "1.515611", "GCcontent (%)": "40.4", "Number of CDSs": "3527", "Average Protein Length": "277.9", "Coding Ratio (%)": "81.9", "Number of rRNAs": "9", "Number of tRNAs": "66", "Number of CRISPRs": "7" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Oceanobacillus massiliensis", "strain": "strain=Ndiop", "accession": "GCA_000285495.1", "taxid": 1465765, "species_taxid": 1465765, "relation_to_type": "type", "validated": true, "ani": 99.9998, "matched_fragments": 1183, "total_fragments": 1186, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Oceanobacillus damuensis", "strain": "strain=PT-20", "accession": "GCA_001618145.1", "taxid": 937928, "species_taxid": 937928, "relation_to_type": "type", "validated": true, "ani": 78.8843, "matched_fragments": 390, "total_fragments": 1186, "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": 78.6085, "matched_fragments": 344, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus polygoni", "strain": "strain=SA9", "accession": "GCA_008304605.1", "taxid": 1235259, "species_taxid": 1235259, "relation_to_type": "type", "validated": true, "ani": 77.9237, "matched_fragments": 279, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Virgibacillus dakarensis", "strain": "strain=Marseille-P3469", "accession": "GCA_900155625.1", "taxid": 1917889, "species_taxid": 1917889, "relation_to_type": "type", "validated": true, "ani": 77.7985, "matched_fragments": 142, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus chungangensis", "strain": "strain=CAU 1051", "accession": "GCA_003369565.1", "taxid": 1229152, "species_taxid": 1229152, "relation_to_type": "type", "validated": true, "ani": 77.7244, "matched_fragments": 156, "total_fragments": 1186, "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": 77.2587, "matched_fragments": 128, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Virgibacillus profundi", "strain": "strain=P3-H5", "accession": "GCA_002287375.1", "taxid": 2024555, "species_taxid": 2024555, "relation_to_type": "type", "validated": true, "ani": 77.1807, "matched_fragments": 190, "total_fragments": 1186, "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": 77.1331, "matched_fragments": 159, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gracilibacillus orientalis", "strain": "strain=CGMCC 1.4250", "accession": "GCA_900114645.1", "taxid": 334253, "species_taxid": 334253, "relation_to_type": "type", "validated": true, "ani": 76.6333, "matched_fragments": 54, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Compostibacillus humi", "strain": "strain=CGMCC 1.12360", "accession": "GCA_014637175.1", "taxid": 1245525, "species_taxid": 1245525, "relation_to_type": "type", "validated": true, "ani": 76.4506, "matched_fragments": 74, "total_fragments": 1186, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000285495.1", "gtdb_species": "s__Oceanobacillus massiliensis", "ani": 99.9998, "matched_fragments": 1183, "total_fragments": 1186, "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": "conclusive" }, { "accession": "GCF_001618145.1", "gtdb_species": "s__Oceanobacillus damuensis", "ani": 78.9089, "matched_fragments": 388, "total_fragments": 1186, "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_002153375.1", "gtdb_species": "s__Oceanobacillus rekensis", "ani": 78.6039, "matched_fragments": 345, "total_fragments": 1186, "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_018333215.1", "gtdb_species": "s__Oceanobacillus sp018333215", "ani": 77.909, "matched_fragments": 139, "total_fragments": 1186, "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_000724085.1", "gtdb_species": "s__Virgibacillus manasiensis", "ani": 77.7983, "matched_fragments": 126, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Virgibacillus", "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": 77.6804, "matched_fragments": 136, "total_fragments": 1186, "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_016919725.1", "gtdb_species": "s__Virgibacillus sp016919725", "ani": 77.3557, "matched_fragments": 109, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Virgibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.34", "min_intra_species_ani": "99.27", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.91", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_014645515.1", "gtdb_species": "s__Oceanobacillus neutriphilus", "ani": 77.2723, "matched_fragments": 128, "total_fragments": 1186, "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_001659985.1", "gtdb_species": "s__Oceanobacillus sp001659985", "ani": 77.2566, "matched_fragments": 114, "total_fragments": 1186, "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_009733865.1", "gtdb_species": "s__Oceanobacillus salinisoli", "ani": 77.1417, "matched_fragments": 160, "total_fragments": 1186, "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_002287375.1", "gtdb_species": "s__Virgibacillus_G profundi", "ani": 77.1207, "matched_fragments": 193, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Virgibacillus_G", "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_900162695.1", "gtdb_species": "s__Lentibacillus siamensis", "ani": 76.9561, "matched_fragments": 105, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Lentibacillus", "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_018333235.1", "gtdb_species": "s__Ornithinibacillus bavariensis", "ani": 76.9474, "matched_fragments": 95, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Ornithinibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.72", "min_intra_species_ani": "98.72", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900162615.1", "gtdb_species": "s__Virgibacillus proomii_A", "ani": 76.9176, "matched_fragments": 96, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Virgibacillus", "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_018916875.1", "gtdb_species": "s__Virgibacillus proomii_B", "ani": 76.8856, "matched_fragments": 86, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Virgibacillus", "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_013373365.1", "gtdb_species": "s__Lentibacillus sp013373365", "ani": 76.7993, "matched_fragments": 85, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Lentibacillus", "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_010994035.1", "gtdb_species": "s__Virgibacillus sp010994035", "ani": 76.6604, "matched_fragments": 94, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Virgibacillus", "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_900114645.1", "gtdb_species": "s__Gracilibacillus orientalis", "ani": 76.6333, "matched_fragments": 54, "total_fragments": 1186, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Gracilibacillus", "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": -0.211, "cell_length": 0.321, "doubling_h": null, "growth_tmp": 30.75, "optimum_tmp": 34.692, "optimum_ph": 8.022, "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": 0.066, "anaerobic_respiration": 0.066, "aerobic_respiration": 0.866, "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", "massiliensis", "str.", "N'diop" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }