{ "type": "genome", "identifier": "GCF_018853615.1", "organism": "Acidithiobacillus caldus ATCC 51756", "title": "Acidithiobacillus caldus ATCC 51756", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Fundacion Ciencia y Vida", "publication": [ {} ], "properties": { "assembly_accession": "GCF_018853615.1", "bioproject": "PRJNA224116", "biosample": "SAMN14361141", "wgs_master": "JAAOMK000000000.1", "refseq_category": "na", "taxid": "637389", "species_taxid": "33059", "organism_name": "Acidithiobacillus caldus ATCC 51756", "infraspecific_name": "strain=DSM 8584", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/06/11", "asm_name": "ASM1885361v1", "asm_submitter": "Fundacion Ciencia y Vida", "gbrs_paired_asm": "GCA_018853615.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/018/853/615/GCF_018853615.1_ASM1885361v1", 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"sample_host_location": [ "United Kingdom: England, North Warwickshire" ], "sample_host_location_id": [], "data_size": "0.860 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)": "3019183", "Number of Sequences": "380", "Longest Sequences (bp)": "220855", "N50 (bp)": "73009", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "61.3", "Number of CDSs": "2873", "Average Protein Length": "299.5", "Coding Ratio (%)": "85.5", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Acidithiobacillus caldus", "strain": "strain=DSM 8584", "accession": "GCA_018853615.1", "taxid": 33059, "species_taxid": 33059, "relation_to_type": "type", "validated": true, "ani": 100.0, 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"status": "below_threshold" }, { "organism_name": "Acidithiobacillus sulfuriphilus", "strain": "strain=CJ-2", "accession": "GCA_003721225.1", "taxid": 1867749, "species_taxid": 1867749, "relation_to_type": "type", "validated": true, "ani": 77.4633, "matched_fragments": 191, "total_fragments": 912, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidithiobacillus ferridurans", "strain": "strain=JCM 18981", "accession": "GCA_003966655.1", "taxid": 1232575, "species_taxid": 1232575, "relation_to_type": "type", "validated": true, "ani": 77.3154, "matched_fragments": 129, "total_fragments": 912, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidithiobacillus ferrianus", "strain": "strain=MG", "accession": "GCA_010378095.1", "taxid": 2678518, "species_taxid": 2678518, "relation_to_type": "type", "validated": true, "ani": 77.2526, "matched_fragments": 138, "total_fragments": 912, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidithiobacillus thiooxidans", "strain": "strain=ATCC 19377", "accession": "GCA_009662475.1", "taxid": 930, "species_taxid": 930, "relation_to_type": "suspected-type", "validated": true, "ani": 77.0918, "matched_fragments": 108, "total_fragments": 912, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermithiobacillus tepidarius", "strain": "strain=DSM 3134", "accession": "GCA_000423825.1", "taxid": 929, "species_taxid": 929, "relation_to_type": "type", "validated": true, "ani": 76.9137, "matched_fragments": 113, "total_fragments": 912, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Inmirania thermothiophila", "strain": "strain=DSM 100275", "accession": "GCA_003751635.1", "taxid": 1750597, "species_taxid": 1750597, "relation_to_type": "type", "validated": true, "ani": 75.8421, "matched_fragments": 51, "total_fragments": 912, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000175575.2", "gtdb_species": "s__Acidithiobacillus_A caldus", "ani": 99.8518, "matched_fragments": 884, "total_fragments": 912, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Acidithiobacillales;f__Acidithiobacillaceae;g__Acidithiobacillus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.11", "min_intra_species_ani": "98.61", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.82", "num_clustered_genomes": 17, "status": "conclusive" }, { "accession": "GCF_018854495.1", "gtdb_species": "s__Acidithiobacillus ferrooxidans_C", "ani": 77.5636, "matched_fragments": 117, "total_fragments": 912, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Acidithiobacillales;f__Acidithiobacillaceae;g__Acidithiobacillus", "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": "GCA_002341825.1", "gtdb_species": "s__UBA2486 sp002341825", "ani": 77.547, "matched_fragments": 118, "total_fragments": 912, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Acidithiobacillales;f__Acidithiobacillaceae;g__UBA2486", "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_018854025.1", "gtdb_species": "s__UBA2486 sp018854025", "ani": 77.4874, "matched_fragments": 160, "total_fragments": 912, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Acidithiobacillales;f__Acidithiobacillaceae;g__UBA2486", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.54", "min_intra_species_ani": "99.39", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_003721225.1", "gtdb_species": "s__Acidithiobacillus_B sulfuriphilus", "ani": 77.473, "matched_fragments": 189, "total_fragments": 912, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Acidithiobacillales;f__Acidithiobacillaceae;g__Acidithiobacillus_B", "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_000021485.1", "gtdb_species": "s__Acidithiobacillus ferrooxidans", "ani": 77.4727, "matched_fragments": 132, "total_fragments": 912, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Acidithiobacillales;f__Acidithiobacillaceae;g__Acidithiobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.94", "min_intra_species_ani": "96.59", 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"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_002847505.1", "gtdb_species": "s__Acidithiobacillus sp002847505", "ani": 76.7218, "matched_fragments": 109, "total_fragments": 912, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Acidithiobacillales;f__Acidithiobacillaceae;g__Acidithiobacillus", "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": -0.155, "cell_length": 0.079, "doubling_h": 0.394, "growth_tmp": 43.367, "optimum_tmp": 45.5, "optimum_ph": 2.0, "genome_size": 3052138.556, "gc_content": 58.895, "coding_genes": 2934.0, "rRNA16S_genes": 2.0, "tRNA_genes": 49.4, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "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": [ "Acidithiobacillus", "caldus", "ATCC", "51756" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }