{ "type": "genome", "identifier": "GCF_000423425.1", "organism": "Meiothermus rufus DSM 22234", "title": "Meiothermus rufus DSM 22234", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000423425.1", "bioproject": "PRJNA224116", "biosample": "SAMN02441497", "wgs_master": "AUHY00000000.1", "refseq_category": "reference genome", "taxid": "604331", "species_taxid": "604332", "organism_name": "Meiothermus rufus DSM 22234", "infraspecific_name": "strain=DSM 22234", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/07/11", "asm_name": "ASM42342v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000423425.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/423/425/GCF_000423425.1_ASM42342v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2747076", "genome_size_ungapped": "2745289", "gc_percent": "63.000000", "replicon_count": "0", "scaffold_count": "121", "contig_count": "123", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000423425.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "2866", "protein_coding_gene_count": "2712", "non_coding_gene_count": "48", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-07-11", "dateModified": "2013-07-11", "datePublished": "2013-07-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Meiothermus rufus DSM 22234" ], "sample_taxid": [ "604331" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "France" ], "sample_host_location_id": [], "data_size": "0.769 MB", "sample_ph_range": { "min": 610.0, "max": 610.0 }, "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)": "2747076", "Number of Sequences": "121", "Longest Sequences (bp)": "91567", "N50 (bp)": "37748", "Gap Ratio (%)": "0.065051", "GCcontent (%)": "63.2", "Number of CDSs": "2691", "Average Protein Length": "309.5", "Coding Ratio (%)": "91.0", "Number of rRNAs": "1", "Number of tRNAs": "42", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Meiothermus rufus", "strain": "strain=DSM 22234", "accession": "GCA_000423425.1", "taxid": 604332, "species_taxid": 604332, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 847, "total_fragments": 854, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Meiothermus ruber", "strain": "strain=DSM 1279", "accession": "GCA_000024425.1", "taxid": 277, "species_taxid": 277, "relation_to_type": "type", "validated": true, "ani": 80.6457, "matched_fragments": 558, "total_fragments": 854, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Meiothermus ruber", "strain": "strain=DSM 1279", "accession": "GCA_000376665.1", "taxid": 277, "species_taxid": 277, "relation_to_type": "type", "validated": true, "ani": 80.5931, "matched_fragments": 546, "total_fragments": 854, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Meiothermus hypogaeus", "strain": "strain=NBRC 106114", "accession": "GCA_007990975.1", "taxid": 884155, "species_taxid": 884155, "relation_to_type": "type", "validated": true, "ani": 80.1587, "matched_fragments": 509, "total_fragments": 854, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Meiothermus hypogaeus", "strain": "strain=DSM 23238", "accession": "GCA_003574035.1", "taxid": 884155, "species_taxid": 884155, "relation_to_type": "type", "validated": true, "ani": 80.0655, "matched_fragments": 519, "total_fragments": 854, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Meiothermus cerbereus", "strain": "strain=DSM 11376", "accession": "GCA_000620065.1", "taxid": 65552, "species_taxid": 65552, "relation_to_type": "type", "validated": true, "ani": 80.0162, "matched_fragments": 520, "total_fragments": 854, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Meiothermus granaticius", "strain": "strain=NBRC 107808", "accession": "GCA_007990995.1", "taxid": 863370, "species_taxid": 863370, "relation_to_type": "type", "validated": true, "ani": 77.6697, "matched_fragments": 267, "total_fragments": 854, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Meiothermus granaticius", "strain": "strain=AF-68", "accession": "GCA_003574355.1", "taxid": 863370, "species_taxid": 863370, "relation_to_type": "type", "validated": true, "ani": 77.632, "matched_fragments": 269, "total_fragments": 854, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000423425.1", "gtdb_species": "s__Meiothermus rufus", "ani": 100.0, "matched_fragments": 847, "total_fragments": 854, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Meiothermus", "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_000482765.1", "gtdb_species": "s__Meiothermus taiwanensis", "ani": 80.891, "matched_fragments": 529, "total_fragments": 854, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Meiothermus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.41", "min_intra_species_ani": "99.02", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000024425.1", "gtdb_species": "s__Meiothermus ruber", "ani": 80.6646, "matched_fragments": 554, "total_fragments": 854, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Meiothermus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.09", "min_intra_species_ani": "97.58", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_003574035.1", "gtdb_species": "s__Meiothermus hypogaeus", "ani": 80.076, "matched_fragments": 518, "total_fragments": 854, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Meiothermus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.94", "min_intra_species_ani": "99.94", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000620065.1", "gtdb_species": "s__Meiothermus cerbereus", "ani": 80.0105, "matched_fragments": 521, "total_fragments": 854, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Meiothermus", "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_017497985.1", "gtdb_species": "s__Meiothermus sp017497985", "ani": 79.9971, "matched_fragments": 549, "total_fragments": 854, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Meiothermus", "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_003351145.1", "gtdb_species": "s__Meiothermus sp003351145", "ani": 79.8809, "matched_fragments": 484, "total_fragments": 854, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Meiothermus", "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_003574085.1", "gtdb_species": "s__Meiothermus luteus", "ani": 79.3815, "matched_fragments": 427, "total_fragments": 854, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Meiothermus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.87", "min_intra_species_ani": "99.87", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003574355.1", "gtdb_species": "s__Meiothermus granaticius", "ani": 77.6202, "matched_fragments": 270, "total_fragments": 854, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Thermaceae;g__Meiothermus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.318, "cell_length": 0.184, "doubling_h": 0.229, "growth_tmp": 51.073, "optimum_tmp": 53.75, "optimum_ph": 7.88, "genome_size": 3457528.316, "gc_content": 63.423, "coding_genes": 3260.5, "rRNA16S_genes": 2.0, "tRNA_genes": 48.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "facultative_respiration": 0.125, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.875, "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": [ "Meiothermus", "rufus", "DSM", "22234" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }