{ "type": "genome", "identifier": "GCF_003352005.1", "organism": "Oceanobacillus zhaokaii", "title": "Oceanobacillus zhaokaii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chinese Center for Disease Control and Prevention", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003352005.1", "bioproject": "PRJNA224116", "biosample": "SAMN07981157", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2052660", "species_taxid": "2052660", "organism_name": "Oceanobacillus zhaokaii", "infraspecific_name": "strain=160", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/01", "asm_name": "ASM335200v1", "asm_submitter": "Chinese Center for Disease Control and Prevention", "gbrs_paired_asm": "GCA_003352005.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/352/005/GCF_003352005.1_ASM335200v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4103611", "genome_size_ungapped": "4103611", "gc_percent": "37.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003352005.1-RS_2024_04_12", "annotation_date": "2024-04-12", "total_gene_count": "4020", "protein_coding_gene_count": "3819", "non_coding_gene_count": "137", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-08-01", "dateModified": "2018-08-01", "datePublished": "2018-08-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Oceanobacillus zhaokaii" ], "sample_taxid": [ "2052660" ], "sample_host_organism": [ "Pantholops hodgsonii" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Kekexili in Haixi city, Qinghai province" ], "sample_host_location_id": [], "data_size": "1.157 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)": "4103611", "Number of Sequences": "1", "Longest Sequences (bp)": "4103611", "N50 (bp)": "4103611", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "37.1", "Number of CDSs": "3956", "Average Protein Length": "279.0", "Coding Ratio (%)": "80.7", "Number of rRNAs": "30", "Number of tRNAs": "103", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Oceanobacillus zhaokaii", "strain": "strain=160", "accession": "GCA_003352005.1", "taxid": 2052660, "species_taxid": 2052660, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1366, "total_fragments": 1367, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Oceanobacillus chungangensis", "strain": "strain=CAU 1051", "accession": "GCA_003369565.1", "taxid": 1229152, "species_taxid": 1229152, "relation_to_type": "type", "validated": true, "ani": 87.0145, "matched_fragments": 1027, "total_fragments": 1367, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus arenosus", "strain": "strain=CAU 1183", "accession": "GCA_003369575.1", "taxid": 1229153, "species_taxid": 1229153, "relation_to_type": "type", "validated": true, "ani": 84.1934, "matched_fragments": 914, "total_fragments": 1367, "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": 79.5552, "matched_fragments": 73, "total_fragments": 1367, "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": 78.1731, "matched_fragments": 194, "total_fragments": 1367, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus senegalensis", "strain": "strain=Marseille-P3587", "accession": "GCA_900176885.1", "taxid": 1936063, "species_taxid": 1936063, "relation_to_type": "type", "validated": true, "ani": 78.135, "matched_fragments": 194, "total_fragments": 1367, "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": 78.128, "matched_fragments": 235, "total_fragments": 1367, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus profundus", "strain": "strain=CL-MP28", "accession": "GCA_008087205.1", "taxid": 372463, "species_taxid": 372463, "relation_to_type": "type", "validated": true, "ani": 78.0939, "matched_fragments": 250, "total_fragments": 1367, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus profundus", "strain": "strain=DSM 18246", "accession": "GCA_003515705.1", "taxid": 372463, "species_taxid": 372463, "relation_to_type": "type", "validated": true, "ani": 78.0562, "matched_fragments": 253, "total_fragments": 1367, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus timonensis", "strain": "strain=Marseille-P3532", "accession": "GCA_900166635.1", "taxid": 1926285, "species_taxid": 1926285, "relation_to_type": "type", "validated": true, "ani": 78.0211, "matched_fragments": 107, "total_fragments": 1367, "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": 77.6205, "matched_fragments": 209, "total_fragments": 1367, "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": 77.6194, "matched_fragments": 230, "total_fragments": 1367, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Virgibacillus litoralis", "strain": "strain=DSM 21085", "accession": "GCA_017873675.1", "taxid": 578221, "species_taxid": 578221, "relation_to_type": "type", "validated": true, "ani": 77.0673, "matched_fragments": 125, "total_fragments": 1367, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Virgibacillus subterraneus", "strain": "strain=CGMCC 1.7734", "accession": "GCA_900110695.1", "taxid": 621109, "species_taxid": 621109, "relation_to_type": "type", "validated": true, "ani": 77.0245, "matched_fragments": 126, "total_fragments": 1367, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus alkalisoli", "strain": "strain=APA_J-2 (6-2)", "accession": "GCA_021556485.1", "taxid": 2925113, "species_taxid": 2925113, "relation_to_type": "type", "validated": true, "ani": 76.9791, "matched_fragments": 125, "total_fragments": 1367, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanobacillus halotolerans", "strain": "strain=YIM 98839", "accession": "GCA_010993955.1", "taxid": 2663380, "species_taxid": 2663380, "relation_to_type": "type", "validated": true, "ani": 76.918, "matched_fragments": 121, "total_fragments": 1367, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychrobacillus faecigallinarum", "strain": "strain=Sa2BUA9", "accession": "GCA_014836595.1", "taxid": 2762235, "species_taxid": 2762235, "relation_to_type": "type", "validated": true, "ani": 76.1833, "matched_fragments": 61, "total_fragments": 1367, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003352005.1", "gtdb_species": "s__Oceanobacillus zhaokaii", "ani": 100.0, "matched_fragments": 1365, "total_fragments": 1367, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Oceanobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.81", "min_intra_species_ani": "99.81", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_003369565.1", "gtdb_species": "s__Oceanobacillus chungangensis", "ani": 87.0018, "matched_fragments": 1029, "total_fragments": 1367, "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_003369575.1", "gtdb_species": "s__Oceanobacillus arenosus", "ani": 84.2036, "matched_fragments": 912, "total_fragments": 1367, "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_900176885.1", "gtdb_species": "s__Oceanobacillus senegalensis", "ani": 78.1463, "matched_fragments": 194, "total_fragments": 1367, "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": 78.137, "matched_fragments": 198, "total_fragments": 1367, "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_002224365.1", "gtdb_species": "s__Virgibacillus_F necropolis", "ani": 78.0982, "matched_fragments": 143, "total_fragments": 1367, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Virgibacillus_F", "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_008304605.1", "gtdb_species": "s__Oceanobacillus polygoni", "ani": 78.0627, "matched_fragments": 237, "total_fragments": 1367, "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_003515705.1", "gtdb_species": "s__Oceanobacillus profundus", "ani": 78.0481, "matched_fragments": 252, "total_fragments": 1367, "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": "-" }, { "accession": "GCF_900166635.1", "gtdb_species": "s__Oceanobacillus timonensis", "ani": 77.8744, "matched_fragments": 106, "total_fragments": 1367, "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": 77.8048, "matched_fragments": 182, "total_fragments": 1367, "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_002287375.1", "gtdb_species": "s__Virgibacillus_G profundi", "ani": 77.6254, "matched_fragments": 210, "total_fragments": 1367, "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_003628445.1", "gtdb_species": "s__Oceanobacillus bengalensis", "ani": 77.5995, "matched_fragments": 232, "total_fragments": 1367, "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_017873675.1", "gtdb_species": "s__Lentibacillus litoralis", "ani": 77.0673, "matched_fragments": 125, "total_fragments": 1367, "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_900110695.1", "gtdb_species": "s__Lentibacillus subterraneus", "ani": 76.9963, "matched_fragments": 126, "total_fragments": 1367, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Lentibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.85", "min_intra_species_ani": "98.85", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_010993955.1", "gtdb_species": "s__YIM-98839 sp010993955", "ani": 76.9392, "matched_fragments": 120, "total_fragments": 1367, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__YIM-98839", "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", "zhaokaii" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }