{ "type": "genome", "identifier": "GCF_000421225.1", "organism": "Ruania albidiflava DSM 18029", "title": "Ruania albidiflava DSM 18029", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000421225.1", "bioproject": "PRJNA224116", "biosample": "SAMN02440902", "wgs_master": "ATWL00000000.1", "refseq_category": "reference genome", "taxid": "1123065", "species_taxid": "366586", "organism_name": "Ruania albidiflava DSM 18029", "infraspecific_name": "strain=DSM 18029", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/07/09", "asm_name": "ASM42122v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000421225.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/421/225/GCF_000421225.1_ASM42122v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4174923", "genome_size_ungapped": "4174923", "gc_percent": "70.000000", "replicon_count": "0", "scaffold_count": "60", "contig_count": "60", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000421225.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "3881", "protein_coding_gene_count": "3768", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-07-09", "dateModified": "2013-07-09", "datePublished": "2013-07-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Ruania albidiflava DSM 18029" ], "sample_taxid": [ "1123065" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.124 MB", "sample_ph_range": { "min": 55125.0, "max": 55125.0 }, "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)": "4174923", "Number of Sequences": "60", "Longest Sequences (bp)": "495633", "N50 (bp)": "211565", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.0", "Number of CDSs": "3826", "Average Protein Length": "330.4", "Coding Ratio (%)": "90.8", "Number of rRNAs": "3", "Number of tRNAs": "48", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Ruania albidiflava", "strain": "strain=DSM 18029", "accession": "GCA_000421225.1", "taxid": 366586, "species_taxid": 366586, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1358, "total_fragments": 1359, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Ruania zhangjianzhongii", "strain": "strain=HY168", "accession": "GCA_008000995.1", "taxid": 2603206, "species_taxid": 2603206, "relation_to_type": "type", "validated": true, "ani": 83.3078, "matched_fragments": 986, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruania alba", "strain": "strain=DSM 21368", "accession": "GCA_900105765.1", "taxid": 648782, "species_taxid": 648782, "relation_to_type": "type", "validated": true, "ani": 80.0241, "matched_fragments": 618, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruania suaedae", "strain": "strain=LR1S40", "accession": "GCA_021049265.1", "taxid": 2897774, "species_taxid": 2897774, "relation_to_type": "type", "validated": true, "ani": 79.7082, "matched_fragments": 557, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Occultella glacieicola", "strain": "strain=T3246-1", "accession": "GCA_004353825.1", "taxid": 2518684, "species_taxid": 2518684, "relation_to_type": "type", "validated": true, "ani": 79.4399, "matched_fragments": 596, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Occultella aeris", "strain": "strain=CIP 111667", "accession": "GCA_902703175.1", "taxid": 2761496, "species_taxid": 2761496, "relation_to_type": "type", "validated": true, "ani": 79.1409, "matched_fragments": 569, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Occultella kanbiaonis", "strain": "strain=HY164", "accession": "GCA_009708215.1", "taxid": 2675754, "species_taxid": 2675754, "relation_to_type": "type", "validated": true, "ani": 79.0859, "matched_fragments": 619, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruania halotolerans", "strain": "strain=M4N3S171", "accession": "GCA_021049285.1", "taxid": 2897773, "species_taxid": 2897773, "relation_to_type": "type", "validated": true, "ani": 78.8573, "matched_fragments": 512, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulomonas taurus", "strain": "strain=P40-2", "accession": "GCA_012931845.1", "taxid": 2729175, "species_taxid": 2729175, "relation_to_type": "type", "validated": true, "ani": 78.1271, "matched_fragments": 350, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudactinotalea suaedae", "strain": "strain=KACC 17839", "accession": "GCA_009733815.1", "taxid": 1524924, "species_taxid": 1524924, "relation_to_type": "type", "validated": true, "ani": 78.1127, "matched_fragments": 441, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Georgenia subflava", "strain": "strain=JCM 19765", "accession": "GCA_009362315.1", "taxid": 1622177, "species_taxid": 1622177, "relation_to_type": "type", "validated": true, "ani": 77.9843, "matched_fragments": 359, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Georgenia muralis", "strain": "strain=DSM 14418", "accession": "GCA_003814705.1", "taxid": 154117, "species_taxid": 154117, "relation_to_type": "type", "validated": true, "ani": 77.7973, "matched_fragments": 336, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Isoptericola chiayiensis", "strain": "strain=KCTC 19740", "accession": "GCA_013149805.1", "taxid": 579446, "species_taxid": 579446, "relation_to_type": "type", "validated": true, "ani": 77.7717, "matched_fragments": 315, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulosimicrobium marinum", "strain": "strain=NBRC 110994", "accession": "GCA_020551945.1", "taxid": 1638992, "species_taxid": 1638992, "relation_to_type": "type", "validated": true, "ani": 77.0762, "matched_fragments": 270, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulosimicrobium arenosum", "strain": "strain=KCTC 49039", "accession": "GCA_014837295.1", "taxid": 2708133, "species_taxid": 2708133, "relation_to_type": "type", "validated": true, "ani": 76.8996, "matched_fragments": 278, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis metallicus", "strain": "strain=DSM 44598", "accession": "GCA_014201115.1", "taxid": 179819, "species_taxid": 179819, "relation_to_type": "type", "validated": true, "ani": 76.4265, "matched_fragments": 221, "total_fragments": 1359, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000421225.1", "gtdb_species": "s__Ruania albidiflava", "ani": 100.0, "matched_fragments": 1358, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Beutenbergiaceae;g__Ruania", "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_019116305.1", "gtdb_species": "s__Ruania gallistercoris", "ani": 83.6599, "matched_fragments": 844, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Beutenbergiaceae;g__Ruania", "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_008000995.1", "gtdb_species": "s__Ruania sp008000995", "ani": 83.3211, "matched_fragments": 984, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Beutenbergiaceae;g__Ruania", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900105765.1", "gtdb_species": "s__Haloactinobacterium album", "ani": 80.0425, "matched_fragments": 616, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Beutenbergiaceae;g__Haloactinobacterium", "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_004353825.1", "gtdb_species": "s__Occultella glacieicola", "ani": 79.4401, "matched_fragments": 597, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Beutenbergiaceae;g__Occultella", "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_902703175.1", "gtdb_species": "s__Occultella aeris", "ani": 79.1161, "matched_fragments": 571, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Beutenbergiaceae;g__Occultella", "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_009708215.1", "gtdb_species": "s__Occultella sp009708215", "ani": 79.1052, "matched_fragments": 617, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Beutenbergiaceae;g__Occultella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.28", "min_intra_species_ani": "97.28", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009733795.1", "gtdb_species": "s__Pseudactinotalea caeni", "ani": 78.3349, "matched_fragments": 471, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Beutenbergiaceae;g__Pseudactinotalea", "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_012931845.1", "gtdb_species": "s__Cellulomonas taurus", "ani": 78.0958, "matched_fragments": 353, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Cellulomonas", "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_003814705.1", "gtdb_species": "s__Georgenia muralis", "ani": 77.8362, "matched_fragments": 332, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Actinomycetaceae;g__Georgenia", "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_013149805.1", "gtdb_species": "s__Isoptericola chiayiensis", "ani": 77.7723, "matched_fragments": 315, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Isoptericola", "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_004216535.1", "gtdb_species": "s__Xylanimonas ulmi", "ani": 77.1993, "matched_fragments": 268, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Xylanimonas", "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_000215105.1", "gtdb_species": "s__Isoptericola variabilis_A", "ani": 77.1256, "matched_fragments": 284, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Isoptericola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.96", "min_intra_species_ani": "99.96", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014837295.1", "gtdb_species": "s__Cellulosimicrobium arenosum", "ani": 76.9176, "matched_fragments": 276, "total_fragments": 1359, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Cellulosimicrobium", "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": -0.302, "cell_length": -0.302, "doubling_h": null, "growth_tmp": 29.0, "optimum_tmp": 28.25, "optimum_ph": 8.5, "genome_size": 4174923.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Ruania", "albidiflava", "DSM", "18029" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }