{ "type": "genome", "identifier": "GCF_022556335.1", "organism": "Thermus arciformis", "title": "Thermus arciformis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "School of Life Science", "publication": [ {} ], "properties": { "assembly_accession": "GCF_022556335.1", "bioproject": "PRJNA224116", "biosample": "SAMN24391262", "wgs_master": "JAKCMF000000000.1", "refseq_category": "na", "taxid": "482827", "species_taxid": "482827", "organism_name": "Thermus arciformis", "infraspecific_name": "strain=JCM 15153", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/03/12", "asm_name": "ASM2255633v1", "asm_submitter": "School of Life Science", "gbrs_paired_asm": "GCA_022556335.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/556/335/GCF_022556335.1_ASM2255633v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2425037", "genome_size_ungapped": "2425037", "gc_percent": "69.000000", "replicon_count": "0", "scaffold_count": "100", "contig_count": "100", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_022556335.1-RS_2024_04_02", "annotation_date": "2024-04-02", "total_gene_count": "2619", "protein_coding_gene_count": "2493", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-03-12", "dateModified": "2022-03-12", "datePublished": "2022-03-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Thermus arciformis" ], "sample_taxid": [ "482827" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Guangxi" ], "sample_host_location_id": [], "data_size": "0.644 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)": "2425037", "Number of Sequences": "100", "Longest Sequences (bp)": "159392", "N50 (bp)": "51310", "Gap Ratio (%)": "0.001072", "GCcontent (%)": "68.8", "Number of CDSs": "2537", "Average Protein Length": "296.3", "Coding Ratio (%)": "93.0", "Number of rRNAs": "3", "Number of tRNAs": "53", "Number of CRISPRs": "11" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thermus arciformis", "strain": "strain=JCM 15153", "accession": "GCA_022556335.1", "taxid": 482827, "species_taxid": 482827, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 756, "total_fragments": 760, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Thermus arciformis", "strain": "strain=CGMCC 1.6992", "accession": "GCA_900102145.1", "taxid": 482827, "species_taxid": 482827, "relation_to_type": "type", "validated": true, "ani": 99.9613, "matched_fragments": 752, "total_fragments": 760, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Thermus thermophilus", "strain": "strain=HB8", "accession": "GCA_000091545.1", "taxid": 274, "species_taxid": 274, "relation_to_type": "type", "validated": true, "ani": 90.9265, "matched_fragments": 566, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermus thermophilus", "strain": "strain=JCM10941", "accession": "GCA_019973715.1", "taxid": 274, "species_taxid": 274, "relation_to_type": "type", "validated": true, "ani": 90.9148, "matched_fragments": 574, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermus parvatiensis", "strain": "strain=RL", "accession": "GCA_001535545.1", "taxid": 456163, "species_taxid": 456163, "relation_to_type": "type", "validated": true, "ani": 89.9631, "matched_fragments": 543, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermus parvatiensis", "strain": "strain=RL", "accession": "GCA_000252835.2", "taxid": 456163, "species_taxid": 456163, "relation_to_type": "type", "validated": true, "ani": 89.7307, "matched_fragments": 538, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermus aquaticus", "strain": "strain=YT-1", "accession": "GCA_001280255.1", "taxid": 271, "species_taxid": 271, "relation_to_type": "type", "validated": true, "ani": 86.9589, "matched_fragments": 578, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermus igniterrae", "strain": "strain=ATCC 700962", "accession": "GCA_000376265.1", "taxid": 88189, "species_taxid": 88189, "relation_to_type": "type", "validated": true, "ani": 86.9058, "matched_fragments": 588, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermus caliditerrae", "strain": "strain=YIM 77925", "accession": "GCA_021462525.1", "taxid": 1330700, "species_taxid": 1330700, "relation_to_type": "type", "validated": true, "ani": 85.8, "matched_fragments": 597, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900102145.1", "gtdb_species": "s__Thermus arciformis", "ani": 99.9613, "matched_fragments": 752, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "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": "conclusive" }, { "accession": "GCA_002355995.1", "gtdb_species": "s__Thermus thermophilus_C", "ani": 92.5521, "matched_fragments": 571, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "ani_circumscription_radius": 95.6833, "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_000091545.1", "gtdb_species": "s__Thermus thermophilus", "ani": 90.9703, "matched_fragments": 564, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "ani_circumscription_radius": 95.7334, "mean_intra_species_ani": "98.46", "min_intra_species_ani": "96.78", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 18, "status": "-" }, { "accession": "GCA_001311585.1", "gtdb_species": "s__Thermus sp001311585", "ani": 90.2348, "matched_fragments": 380, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "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_001535545.1", "gtdb_species": "s__Thermus parvatiensis", "ani": 89.9349, "matched_fragments": 544, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "ani_circumscription_radius": 95.7334, "mean_intra_species_ani": "98.79", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_001311545.1", "gtdb_species": "s__Thermus kawarayensis", "ani": 89.7073, "matched_fragments": 366, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "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_014647535.1", "gtdb_species": "s__Thermus composti", "ani": 88.5013, "matched_fragments": 541, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "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_000421625.1", "gtdb_species": "s__Thermus islandicus", "ani": 87.2444, "matched_fragments": 577, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "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_001280255.1", "gtdb_species": "s__Thermus aquaticus", "ani": 86.9798, "matched_fragments": 577, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.02", "min_intra_species_ani": "97.96", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000794385.1", "gtdb_species": "s__Thermus sp000794385", "ani": 86.9471, "matched_fragments": 594, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "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_000376265.1", "gtdb_species": "s__Thermus igniterrae", "ani": 86.9055, "matched_fragments": 588, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "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_003426945.1", "gtdb_species": "s__Thermus sediminis", "ani": 86.2996, "matched_fragments": 569, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "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_000236585.1", "gtdb_species": "s__Thermus sp000236585", "ani": 86.0426, "matched_fragments": 581, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "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_000745065.1", "gtdb_species": "s__Thermus caliditerrae", "ani": 85.7681, "matched_fragments": 595, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Thermus", "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": -0.222, "cell_length": 0.419, "doubling_h": -0.009, "growth_tmp": 65.713, "optimum_tmp": 70.0, "optimum_ph": 7.75, "genome_size": 2442297.0, "gc_content": 67.776, "coding_genes": 2233.787, "rRNA16S_genes": 1.833, "tRNA_genes": 48.633, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 1.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.0, "thermophilic_range_tmp": 1.0, "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": [ "Thermus", "arciformis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }