{ "type": "genome", "identifier": "GCF_000763315.1", "organism": "Thermoactinomyces daqus", "title": "Thermoactinomyces daqus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "CICC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000763315.1", "bioproject": "PRJNA224116", "biosample": "SAMN02949508", "wgs_master": "JPST00000000.1", "refseq_category": "reference genome", "taxid": "1329516", "species_taxid": "1329516", "organism_name": "Thermoactinomyces daqus", "infraspecific_name": "strain=H-18", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/10/03", "asm_name": "ASM76331v1", "asm_submitter": "CICC", "gbrs_paired_asm": "GCA_000763315.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/763/315/GCF_000763315.1_ASM76331v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3441572", "genome_size_ungapped": "3441572", "gc_percent": "49.000000", "replicon_count": "0", "scaffold_count": "86", "contig_count": "86", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000763315.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "3657", "protein_coding_gene_count": "3487", "non_coding_gene_count": "70", "pubmed_id": "25573938" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-10-03", "dateModified": "2014-10-03", "datePublished": "2014-10-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Thermoactinomyces daqus" ], "sample_taxid": [ "1329516" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Gaoqing, Shandong Province" ], "sample_host_location_id": [], "data_size": "0.981 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)": "3441572", "Number of Sequences": "86", "Longest Sequences (bp)": "257201", "N50 (bp)": "116061", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "48.8", "Number of CDSs": "3635", "Average Protein Length": "265.7", "Coding Ratio (%)": "84.2", "Number of rRNAs": "3", "Number of tRNAs": "58", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thermoactinomyces daqus", "strain": "strain=H-18", "accession": "GCA_000763315.1", "taxid": 1329516, "species_taxid": 1329516, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1099, "total_fragments": 1103, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lihuaxuella thermophila", "strain": "strain=DSM 46701", "accession": "GCA_900110165.1", "taxid": 1173111, "species_taxid": 1173111, "relation_to_type": "type", "validated": true, "ani": 77.5143, "matched_fragments": 162, "total_fragments": 1103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Laceyella sacchari", "strain": "strain=DSM 43356", "accession": "GCA_004343255.1", "taxid": 37482, "species_taxid": 37482, "relation_to_type": "type", "validated": true, "ani": 77.2758, "matched_fragments": 148, "total_fragments": 1103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermoactinomyces intermedius", "strain": "strain=NRRL B-16979", "accession": "GCA_013912365.1", "taxid": 2024, "species_taxid": 2024, "relation_to_type": "type", "validated": true, "ani": 77.1478, "matched_fragments": 144, "total_fragments": 1103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polycladomyces abyssicola", "strain": "strain=JIR-001", "accession": "GCA_018326425.1", "taxid": 1125966, "species_taxid": 1125966, "relation_to_type": "type", "validated": true, "ani": 76.8692, "matched_fragments": 68, "total_fragments": 1103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylospora marina", "strain": "strain=SCSIO 07575", "accession": "GCA_003856495.1", "taxid": 2490858, "species_taxid": 2490858, "relation_to_type": "type", "validated": true, "ani": 76.7751, "matched_fragments": 87, "total_fragments": 1103, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000763315.1", "gtdb_species": "s__Thermoactinomyces_A daqus", "ani": 100.0, "matched_fragments": 1099, "total_fragments": 1103, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__Thermoactinomycetaceae;g__Thermoactinomyces_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", "min_intra_species_ani": "99.22", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCF_900110165.1", "gtdb_species": "s__Lihuaxuella thermophila", "ani": 77.511, "matched_fragments": 163, "total_fragments": 1103, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__Thermoactinomycetaceae;g__Lihuaxuella", "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_004343255.1", "gtdb_species": "s__Laceyella sacchari", "ani": 77.2758, "matched_fragments": 148, "total_fragments": 1103, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__Thermoactinomycetaceae;g__Laceyella", "ani_circumscription_radius": 95.237, "mean_intra_species_ani": "96.84", "min_intra_species_ani": "96.83", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_016055185.1", "gtdb_species": "s__Paenactinomyces guangxiensis", "ani": 77.1093, "matched_fragments": 141, "total_fragments": 1103, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__Thermoactinomycetaceae;g__Paenactinomyces", "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_018326425.1", "gtdb_species": "s__Polycladomyces abyssicola", "ani": 76.8692, "matched_fragments": 68, "total_fragments": 1103, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__JIR-001;g__Polycladomyces", "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_003856495.1", "gtdb_species": "s__Staphylospora marina", "ani": 76.7751, "matched_fragments": 87, "total_fragments": 1103, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__Thermoactinomycetaceae;g__Staphylospora", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": 55.0, "optimum_tmp": 55.0, "optimum_ph": 7.0, "genome_size": 3441572.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Thermoactinomyces", "daqus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }