{ "type": "genome", "identifier": "GCF_000016745.1", "organism": "Geotalea uraniireducens Rf4", "title": "Geotalea uraniireducens Rf4", "description": "na", "data type": "Genome sequencing and assembly", "organization": "US DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000016745.1", "bioproject": "PRJNA224116", "biosample": "SAMN02598352", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "351605", "species_taxid": "351604", "organism_name": "Geotalea uraniireducens Rf4", "infraspecific_name": "strain=Rf4", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2007/05/11", "asm_name": "ASM1674v1", "asm_submitter": "US DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000016745.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/016/745/GCF_000016745.1_ASM1674v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5136364", "genome_size_ungapped": "5136364", "gc_percent": "54.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000016745.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "4601", "protein_coding_gene_count": "4479", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2007-05-11", "dateModified": "2007-05-11", "datePublished": "2007-05-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Geotalea uraniireducens Rf4" ], "sample_taxid": [ "351605" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.454 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 97.92, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5136364", "Number of Sequences": "1", "Longest Sequences (bp)": "5136364", "N50 (bp)": "5136364", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "54.2", "Number of CDSs": "4576", "Average Protein Length": "324.7", "Coding Ratio (%)": "86.8", "Number of rRNAs": "6", "Number of tRNAs": "51", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Geotalea uraniireducens", "strain": "strain=Rf4", "accession": "GCA_000016745.1", "taxid": 351604, "species_taxid": 351604, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1712, "total_fragments": 1712, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Geotalea daltonii", "strain": "strain=FRC-32", "accession": "GCA_000022265.1", "taxid": 1203471, "species_taxid": 1203471, "relation_to_type": "type", "validated": true, "ani": 78.1407, "matched_fragments": 401, "total_fragments": 1712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geobacter argillaceus", "strain": "strain=ATCC BAA-1139", "accession": "GCA_007830735.1", "taxid": 345631, "species_taxid": 345631, "relation_to_type": "type", "validated": true, "ani": 78.062, "matched_fragments": 318, "total_fragments": 1712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geobacter luticola", "strain": "strain=JCM 17780", "accession": "GCA_018476905.1", "taxid": 1114878, "species_taxid": 1114878, "relation_to_type": "type", "validated": true, "ani": 77.9398, "matched_fragments": 345, "total_fragments": 1712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geotalea toluenoxydans", "strain": "strain=JCM 15764", "accession": "GCA_001311985.1", "taxid": 421624, "species_taxid": 421624, "relation_to_type": "type", "validated": true, "ani": 77.9139, "matched_fragments": 397, "total_fragments": 1712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geomonas paludis", "strain": "strain=Red736", "accession": "GCA_014193585.1", "taxid": 2740185, "species_taxid": 2740185, "relation_to_type": "type", "validated": true, "ani": 77.6437, "matched_fragments": 262, "total_fragments": 1712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geomonas azotofigens", "strain": "strain=Red51", "accession": "GCA_018919395.1", "taxid": 2843196, "species_taxid": 2843196, "relation_to_type": "type", "validated": true, "ani": 77.6311, "matched_fragments": 268, "total_fragments": 1712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geomonas anaerohicana", "strain": "strain=Red421", "accession": "GCA_016458305.1", "taxid": 2798583, "species_taxid": 2798583, "relation_to_type": "type", "validated": true, "ani": 77.5439, "matched_fragments": 272, "total_fragments": 1712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geomonas propionica", "strain": "strain=Red259", "accession": "GCA_016458235.1", "taxid": 2798582, "species_taxid": 2798582, "relation_to_type": "type", "validated": true, "ani": 77.4512, "matched_fragments": 262, "total_fragments": 1712, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geomonas ferrireducens", "strain": "strain=S62", "accession": "GCA_004917065.1", "taxid": 2570227, "species_taxid": 2570227, "relation_to_type": "type", "validated": true, "ani": 77.4098, "matched_fragments": 245, "total_fragments": 1712, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 97.92, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000016745.1", "gtdb_species": "s__Geotalea uraniireducens", "ani": 100.0, "matched_fragments": 1711, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geotalea", "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_009773645.1", "gtdb_species": "s__WSYB01 sp009773645", "ani": 78.637, "matched_fragments": 435, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__WSYB01", "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_011362645.1", "gtdb_species": "s__DSSF01 sp011362645", "ani": 78.2129, "matched_fragments": 265, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__DSSF01", "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_000022265.1", "gtdb_species": "s__Geotalea daltonii", "ani": 78.1499, "matched_fragments": 400, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geotalea", "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_018986935.1", "gtdb_species": "s__Geomonas sp018986935", "ani": 78.042, "matched_fragments": 280, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.24", "min_intra_species_ani": "99.10", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_018476905.1", "gtdb_species": "s__Geomobilimonas luticola", "ani": 77.9409, "matched_fragments": 345, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomobilimonas", "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_001311985.1", "gtdb_species": "s__Geotalea toluenoxydans", "ani": 77.8991, "matched_fragments": 398, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geotalea", "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_018986915.1", "gtdb_species": "s__Geomonas sp018986915", "ani": 77.6868, "matched_fragments": 276, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "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_003490025.1", "gtdb_species": "s__Geomonas sp003490025", "ani": 77.6797, "matched_fragments": 274, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "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_009684525.1", "gtdb_species": "s__Geoanaerobacter sp009684525", "ani": 77.6756, "matched_fragments": 289, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geoanaerobacter", "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_014193585.1", "gtdb_species": "s__Geomonas paludis", "ani": 77.6427, "matched_fragments": 262, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "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_002117975.1", "gtdb_species": "s__Geomonas pelophila", "ani": 77.4857, "matched_fragments": 251, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.46", "min_intra_species_ani": "97.46", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_016458235.1", "gtdb_species": "s__Geomonas propionica", "ani": 77.4733, "matched_fragments": 260, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "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_903925075.1", "gtdb_species": "s__Geomonas sp903925075", "ani": 77.3159, "matched_fragments": 277, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "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_016458275.1", "gtdb_species": "s__Geomesophilobacter sediminis", "ani": 77.1989, "matched_fragments": 274, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomesophilobacter", "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_014380135.1", "gtdb_species": "s__JACRCG01 sp014380135", "ani": 76.8969, "matched_fragments": 142, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Pseudopelobacteraceae;g__JACRCG01", "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_903868145.1", "gtdb_species": "s__CAIPTY01 sp903868145", "ani": 76.6371, "matched_fragments": 102, "total_fragments": 1712, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Pseudopelobacteraceae;g__CAIPTY01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.88", "min_intra_species_ani": "99.88", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "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": [ "Geotalea", "uraniireducens", "Rf4" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }