{ "type": "genome", "identifier": "GCF_009602435.1", "organism": "Sediminibacillus terrae", "title": "Sediminibacillus terrae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "College of Biology and Environmental Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009602435.1", "bioproject": "PRJNA224116", "biosample": "SAMN12818507", "wgs_master": "VZDQ00000000.1", "refseq_category": "reference genome", "taxid": "1562106", "species_taxid": "1562106", "organism_name": "Sediminibacillus terrae", "infraspecific_name": "strain=JSM 102062", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/11/06", "asm_name": "ASM960243v1", "asm_submitter": "College of Biology and Environmental Sciences", "gbrs_paired_asm": "GCA_009602435.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/602/435/GCF_009602435.1_ASM960243v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4093757", "genome_size_ungapped": "4093584", "gc_percent": "44.000000", "replicon_count": "0", "scaffold_count": "29", "contig_count": "29", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009602435.1-RS_2024_03_16", "annotation_date": "2024-03-16", "total_gene_count": "4026", "protein_coding_gene_count": "3887", "non_coding_gene_count": "97", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-11-06", "dateModified": "2019-11-06", "datePublished": "2019-11-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Sediminibacillus terrae" ], "sample_taxid": [ "1562106" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.166 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)": "4093757", "Number of Sequences": "29", "Longest Sequences (bp)": "669682", "N50 (bp)": "486406", "Gap Ratio (%)": "0.004226", "GCcontent (%)": "44.0", "Number of CDSs": "3970", "Average Protein Length": "284.9", "Coding Ratio (%)": "82.9", "Number of rRNAs": "6", "Number of tRNAs": "66", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sediminibacillus terrae", "strain": "strain=JSM 102062", "accession": "GCA_009602435.1", "taxid": 1562106, "species_taxid": 1562106, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1353, "total_fragments": 1353, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sediminibacillus dalangtanensis", "strain": "strain=DP4-553-S", "accession": "GCA_017792025.1", "taxid": 2729421, "species_taxid": 2729421, "relation_to_type": "type", "validated": true, "ani": 87.567, "matched_fragments": 1167, "total_fragments": 1353, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sediminibacillus halophilus", "strain": "strain=CGMCC 1.6199", "accession": "GCA_900103695.1", "taxid": 482461, "species_taxid": 482461, "relation_to_type": "type", "validated": true, "ani": 86.404, "matched_fragments": 1145, "total_fragments": 1353, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sediminibacillus albus", "strain": "strain=CGMCC 1.6502", "accession": "GCA_900101125.1", "taxid": 407036, "species_taxid": 407036, "relation_to_type": "type", "validated": true, "ani": 78.5753, "matched_fragments": 388, "total_fragments": 1353, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halobacillus trueperi", "strain": "strain=KCTC 3686", "accession": "GCA_003386945.1", "taxid": 156205, "species_taxid": 156205, "relation_to_type": "type", "validated": true, "ani": 78.2758, "matched_fragments": 73, "total_fragments": 1353, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halobacillus massiliensis", "strain": "strain=Marseille-P3554", "accession": "GCA_900166625.1", "taxid": 1926286, "species_taxid": 1926286, "relation_to_type": "type", "validated": true, "ani": 77.5458, "matched_fragments": 60, "total_fragments": 1353, "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": 76.8215, "matched_fragments": 63, "total_fragments": 1353, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Virgibacillus oceani", "strain": "strain=CGMCC 1.12754", "accession": "GCA_014638995.1", "taxid": 1479511, "species_taxid": 1479511, "relation_to_type": "type", "validated": true, "ani": 76.7611, "matched_fragments": 63, "total_fragments": 1353, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Terribacillus halophilus", "strain": "strain=DSM 21620", "accession": "GCA_900101385.1", "taxid": 361279, "species_taxid": 361279, "relation_to_type": "type", "validated": true, "ani": 76.7205, "matched_fragments": 62, "total_fragments": 1353, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009602435.1", "gtdb_species": "s__Sediminibacillus terrae", "ani": 100.0, "matched_fragments": 1353, "total_fragments": 1353, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Sediminibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.15", "min_intra_species_ani": "99.14", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_017792025.1", "gtdb_species": "s__Sediminibacillus sp017792025", "ani": 87.5709, "matched_fragments": 1166, "total_fragments": 1353, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Sediminibacillus", "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_900103695.1", "gtdb_species": "s__Sediminibacillus halophilus", "ani": 86.3998, "matched_fragments": 1146, "total_fragments": 1353, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Sediminibacillus", "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_000821245.2", "gtdb_species": "s__Sediminibacillus senegalensis", "ani": 81.9343, "matched_fragments": 818, "total_fragments": 1353, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Sediminibacillus", "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_900101125.1", "gtdb_species": "s__Sediminibacillus albus", "ani": 78.5772, "matched_fragments": 388, "total_fragments": 1353, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Sediminibacillus", "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_900156915.1", "gtdb_species": "s__Sediminibacillus_A massiliensis", "ani": 77.5542, "matched_fragments": 206, "total_fragments": 1353, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Sediminibacillus_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_900110695.1", "gtdb_species": "s__Lentibacillus subterraneus", "ani": 76.7847, "matched_fragments": 64, "total_fragments": 1353, "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_000770635.1", "gtdb_species": "s__Pontibacillus yanchengensis", "ani": 76.3806, "matched_fragments": 54, "total_fragments": 1353, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Halobacillaceae;g__Pontibacillus", "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": -0.174, "cell_length": 0.326, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 37.0, "optimum_ph": 7.5, "genome_size": 3802046.166, "gc_content": 44.0, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 1.0, "motility": 1.0, "range_salinity": 1.0, "facultative_respiration": 0.5, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.5, "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": [ "Sediminibacillus", "terrae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }