{ "type": "genome", "identifier": "GCA_902782945.1", "organism": "uncultured Methanobacteriaceae archaeon", "title": "uncultured Methanobacteriaceae archaeon", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "THE ROSLIN INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902782945.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6150961", "wgs_master": "CACZOU000000000.1", "refseq_category": "na", "taxid": "176233", "species_taxid": "176233", "organism_name": "uncultured Methanobacteriaceae archaeon", "infraspecific_name": "", "isolate": "RUG12825", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/14", "asm_name": "Rumen uncultured genome RUG12825", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/782/945/GCA_902782945.1_Rumen_uncultured_genome_RUG12825", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-02-14", "dateModified": "2020-02-14", "datePublished": "2020-02-14", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Methanobacteriaceae archaeon" ], "sample_taxid": [ "176233" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom" ], "sample_host_location_id": [], "data_size": "0.472 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 84.75, "contamination": 7.99, "strain_heterogeneity": 33.33, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1706156", "Number of Sequences": "106", "Longest Sequences (bp)": "120309", "N50 (bp)": "32227", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "29.7", "Number of CDSs": "1536", "Average Protein Length": "292.1", "Coding Ratio (%)": "78.9", "Number of rRNAs": "0", "Number of tRNAs": "36", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Methanosphaera stadtmanae", "strain": "strain=DSM 3091", "accession": "GCA_000012545.1", "taxid": 2317, "species_taxid": 2317, "relation_to_type": "type", "validated": true, "ani": 80.0556, "matched_fragments": 288, "total_fragments": 515, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methanosphaera cuniculi", "strain": "strain=DSM 4103", "accession": "GCA_003149675.1", "taxid": 1077256, "species_taxid": 1077256, "relation_to_type": "type", "validated": true, "ani": 78.7781, "matched_fragments": 202, "total_fragments": 515, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methanosphaera cuniculi", "strain": "strain=1R-7", "accession": "GCA_002287195.1", "taxid": 1077256, "species_taxid": 1077256, "relation_to_type": "type", "validated": true, "ani": 78.7053, "matched_fragments": 211, "total_fragments": 515, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 84.75, "contamination": 7.99, "strain_heterogeneity": 33.33 }, "gtdb_result": [ { "accession": "GCA_902782945.1", "gtdb_species": "s__Methanosphaera sp900322125", "ani": 100.0, "matched_fragments": 506, "total_fragments": 515, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanosphaera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.80", "min_intra_species_ani": "97.01", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.75", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_001729965.1", "gtdb_species": "s__Methanosphaera sp001729965", "ani": 80.7027, "matched_fragments": 287, "total_fragments": 515, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanosphaera", "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_000012545.1", "gtdb_species": "s__Methanosphaera stadtmanae", "ani": 80.0552, "matched_fragments": 288, "total_fragments": 515, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanosphaera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.82", "min_intra_species_ani": "99.70", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.98", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_003149675.1", "gtdb_species": "s__Methanosphaera cuniculi", "ani": 78.8001, "matched_fragments": 201, "total_fragments": 515, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanosphaera", "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": "GCA_015062825.1", "gtdb_species": "s__Methanosphaera stadtmanae_A", "ani": 78.3144, "matched_fragments": 199, "total_fragments": 515, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanosphaera", "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": -0.387, "cell_length": 0.286, "doubling_h": 1.178, "growth_tmp": 41.026, "optimum_tmp": 41.833, "optimum_ph": 7.196, "genome_size": 2305760.763, "gc_content": 36.522, "coding_genes": 2034.897, "rRNA16S_genes": 2.333, "tRNA_genes": 40.993, "gram_stain": 0.589, "sporulation": 0.0, "motility": 0.027, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 0.714, "thermophilic_range_tmp": 0.285, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.777, "coccus_cell_shape": 0.133, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.088, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Archaea", "p__Methanobacteriota", "c__Methanobacteria", "o__Methanobacteriales", "f__Methanobacteriaceae", "g__Methanosphaera", "s__Methanosphaera sp900322125" ], "_genome_taxon": [ "uncultured", "Methanobacteriaceae", "archaeon", "d__Archaea", "p__Methanobacteriota", "c__Methanobacteria", "o__Methanobacteriales", "f__Methanobacteriaceae", "g__Methanosphaera", "s__Methanosphaera sp900322125", "Archaea", "Methanobacteriota", "Methanobacteria", "Methanobacteriales", "Methanobacteriaceae", "Methanosphaera", "Methanosphaera", "sp900322125" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }