{ "type": "genome", "identifier": "GCF_000175575.2", "organism": "Acidithiobacillus caldus ATCC 51756", "title": "Acidithiobacillus caldus ATCC 51756", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Center for Bioinformatics and Genome Biology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000175575.2", "bioproject": "PRJNA224116", "biosample": "SAMN02469802", "wgs_master": "na", "refseq_category": "na", "taxid": "637389", "species_taxid": "33059", "organism_name": "Acidithiobacillus caldus ATCC 51756", "infraspecific_name": "strain=ATCC 51756", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/05/27", "asm_name": "ASM17557v2", "asm_submitter": "Center for Bioinformatics and Genome Biology", "gbrs_paired_asm": "GCA_000175575.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/175/575/GCF_000175575.2_ASM17557v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2987045", "genome_size_ungapped": "2987045", "gc_percent": "61.500000", "replicon_count": "4", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000175575.2-RS_2024_12_23", "annotation_date": "2024-12-23", "total_gene_count": "3016", "protein_coding_gene_count": "2882", "non_coding_gene_count": "58", "pubmed_id": "19617360" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-05-27", "dateModified": "2014-05-27", "datePublished": "2014-05-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Acidithiobacillus caldus ATCC 51756" ], "sample_taxid": [ "637389" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.839 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)": "2987045", "Number of Sequences": "4", "Longest Sequences (bp)": "2777717", "N50 (bp)": "2777717", "Gap Ratio (%)": "0.001507", "GCcontent (%)": "61.4", "Number of CDSs": "2982", "Average Protein Length": "299.5", "Coding Ratio (%)": "89.7", "Number of rRNAs": "6", "Number of tRNAs": "50", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Acidithiobacillus caldus", "strain": "strain=ATCC 51756", "accession": "GCA_000175575.2", "taxid": 33059, "species_taxid": 33059, "relation_to_type": 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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": 77.4843, "matched_fragments": 109, "total_fragments": 994, "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": 75.97, "matched_fragments": 57, "total_fragments": 994, "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": 100.0, "matched_fragments": 993, "total_fragments": 994, "gtdb_taxonomy": 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167, "total_fragments": 994, "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": "GCA_002341825.1", "gtdb_species": "s__UBA2486 sp002341825", "ani": 77.556, "matched_fragments": 119, "total_fragments": 994, "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_009662475.1", "gtdb_species": "s__Acidithiobacillus thiooxidans", "ani": 77.484, "matched_fragments": 108, 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76.7855, "matched_fragments": 53, "total_fragments": 994, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Ectothiorhodospirales;f__Ectothiorhodospiraceae;g__Ectothiorhodospira", "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_003751635.1", "gtdb_species": "s__Inmirania thermothiophila", "ani": 75.97, "matched_fragments": 57, "total_fragments": 994, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__DSM-100275;f__DSM-100275;g__Inmirania", "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, 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