{ "type": "genome", "identifier": "GCA_017879965.1", "organism": "Actinomycetota bacterium", "title": "Actinomycetota bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "University of Duisburg-Essen", "publication": [ {} ], "properties": { "assembly_accession": "GCA_017879965.1", "bioproject": "PRJNA665391", "biosample": "SAMN17977160", "wgs_master": "JAGEKV000000000.1", "refseq_category": "na", "taxid": "2900548", "species_taxid": "2900548", "organism_name": "Actinomycetota bacterium", "infraspecific_name": "", "isolate": "LB3_2", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/04/08", "asm_name": "ASM1787996v1", "submitter": "University of Duisburg-Essen", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/017/879/965/GCA_017879965.1_ASM1787996v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-04-08", "dateModified": "2021-04-08", "datePublished": "2021-04-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinomycetia bacterium" ], "sample_taxid": [ "1883427" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Chile: Lomas Bayas, Atacama Desert" ], "sample_host_location_id": [], "data_size": "0.838 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 86.11, "contamination": 13.48, "strain_heterogeneity": 25.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3001721", "Number of Sequences": "363", "Longest Sequences (bp)": "64034", "N50 (bp)": "12102", "Gap Ratio (%)": "0.674680", "GCcontent (%)": "66.2", "Number of CDSs": "2691", "Average Protein Length": "277.3", "Coding Ratio (%)": "74.6", "Number of rRNAs": "0", "Number of tRNAs": "34", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Solirubrobacter pauli", "strain": "strain=DSM 14954", "accession": "GCA_003633755.1", "taxid": 166793, "species_taxid": 166793, "relation_to_type": "type", "validated": true, "ani": 76.9092, "matched_fragments": 218, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Capillimicrobium parvum", "strain": "strain=0166_1", "accession": "GCA_021172045.1", "taxid": 2884022, "species_taxid": 2884022, "relation_to_type": "type", "validated": true, "ani": 76.8699, "matched_fragments": 188, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Conexibacter arvalis", "strain": "strain=DSM 23288", "accession": "GCA_014199525.1", "taxid": 912552, "species_taxid": 912552, "relation_to_type": "type", "validated": true, "ani": 76.5114, "matched_fragments": 203, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Baekduia soli", "strain": "strain=BR7-21", "accession": "GCA_007970665.1", "taxid": 496014, "species_taxid": 496014, "relation_to_type": "type", "validated": true, "ani": 76.4896, "matched_fragments": 187, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Conexibacter woesei", "strain": "strain=DSM 14684", "accession": "GCA_000025265.1", "taxid": 191495, "species_taxid": 191495, "relation_to_type": "type", "validated": true, "ani": 76.2796, "matched_fragments": 205, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraconexibacter algicola", "strain": "strain=Seoho-28", "accession": "GCA_003044185.1", "taxid": 2133960, "species_taxid": 2133960, "relation_to_type": "type", "validated": true, "ani": 76.2355, "matched_fragments": 168, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Patulibacter americanus", "strain": "strain=DSM 16676", "accession": "GCA_000420025.1", "taxid": 588672, "species_taxid": 588672, "relation_to_type": "type", "validated": true, "ani": 75.8022, "matched_fragments": 123, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Patulibacter minatonensis", "strain": "strain=DSM 18081", "accession": "GCA_000519325.1", "taxid": 298163, "species_taxid": 298163, "relation_to_type": "type", "validated": true, "ani": 75.7026, "matched_fragments": 133, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Miltoncostaea oceani", "strain": "strain=SCSIO 61214", "accession": "GCA_018141545.1", "taxid": 2843216, "species_taxid": 2843216, "relation_to_type": "type", "validated": true, "ani": 75.486, "matched_fragments": 89, "total_fragments": 851, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 86.11, "contamination": 13.48, "strain_heterogeneity": 25.0 }, "gtdb_result": [ { "accession": "GCA_016781085.1", "gtdb_species": "s__LC5-1 sp016781085", "ani": 99.4136, "matched_fragments": 567, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__LC5-1", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.49", "min_intra_species_ani": "99.49", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_000425945.1", "gtdb_species": "s__Solirubrobacter sp000425945", "ani": 77.072, "matched_fragments": 231, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Solirubrobacter", "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_018268595.1", "gtdb_species": "s__Conexibacter sp018268595", "ani": 77.0363, "matched_fragments": 161, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Conexibacter", "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_013813955.1", "gtdb_species": "s__CADCVQ01 sp013813955", "ani": 76.9595, "matched_fragments": 98, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__CADCVQ01", "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_902806175.1", "gtdb_species": "s__CADCVQ01 sp902806175", "ani": 76.8751, "matched_fragments": 148, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__CADCVQ01", "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_000423665.1", "gtdb_species": "s__Solirubrobacter soli", "ani": 76.8123, "matched_fragments": 226, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Solirubrobacter", "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_017084525.1", "gtdb_species": "s__Baekduia sp017084525", "ani": 76.6859, "matched_fragments": 175, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Baekduia", "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_017882375.1", "gtdb_species": "s__Palsa-744 sp017882375", "ani": 76.6722, "matched_fragments": 114, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Palsa-744", "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_014199525.1", "gtdb_species": "s__Conexibacter arvalis", "ani": 76.5118, "matched_fragments": 203, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Conexibacter", "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_005883905.1", "gtdb_species": "s__AC-49 sp005883905", "ani": 76.2817, "matched_fragments": 107, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__AC-49", "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_000688095.1", "gtdb_species": "s__Baekduia sp000688095", "ani": 76.2809, "matched_fragments": 191, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Baekduia", "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_902806205.1", "gtdb_species": "s__SEOHO-28 sp902806205", "ani": 76.2784, "matched_fragments": 141, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__SEOHO-28", "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_003044185.1", "gtdb_species": "s__SEOHO-28 sp003044185", "ani": 76.2447, "matched_fragments": 167, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__SEOHO-28", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.17", "min_intra_species_ani": "98.17", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_003244035.1", "gtdb_species": "s__Palsa-465 sp003244035", "ani": 76.1993, "matched_fragments": 93, "total_fragments": 851, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Palsa-465", "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": 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 }, "_gtdb_taxon": [ "d__Bacteria", "p__Actinomycetota", "c__Thermoleophilia", "o__Solirubrobacterales", "f__Solirubrobacteraceae", "g__LC5-1", "s__LC5-1 sp016781085" ], "_genome_taxon": [ "Actinomycetota", "bacterium", "d__Bacteria", "p__Actinomycetota", "c__Thermoleophilia", "o__Solirubrobacterales", "f__Solirubrobacteraceae", "g__LC5-1", "s__LC5-1 sp016781085", "Bacteria", "Actinomycetota", "Thermoleophilia", "Solirubrobacterales", "Solirubrobacteraceae", "LC5-1", "LC5-1", "sp016781085" ], "_meo": [ { "id": "MEO_0000007", "label": "soil" }, { "id": "MEO_0000196", "label": "desert" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }