{ "type": "genome", "identifier": "GCA_020855015.1", "organism": "Methanobacterium sp.", "title": "Methanobacterium sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCA_020855015.1", "bioproject": "PRJNA567733", "biosample": "SAMN19322291", "wgs_master": "JAHKLP000000000.1", "refseq_category": "na", "taxid": "2164", "species_taxid": "2164", "organism_name": "Methanobacterium sp.", "infraspecific_name": "", "isolate": "MAG 286", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/11/12", "asm_name": "ASM2085501v1", "submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/020/855/015/GCA_020855015.1_ASM2085501v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-11-12", "dateModified": "2021-11-12", "datePublished": "2021-11-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Methanobacterium sp." ], "sample_taxid": [ "2164" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Netherlands: Wageningen, Gelderland" ], "sample_host_location_id": [], "data_size": "0.478 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 81.39, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1679755", "Number of Sequences": "142", "Longest Sequences (bp)": "99996", "N50 (bp)": "19715", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "38.1", "Number of CDSs": "1634", "Average Protein Length": "267.5", "Coding Ratio (%)": "78.1", "Number of rRNAs": "1", "Number of tRNAs": "37", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Methanobacterium paludis", "strain": "strain=SWAN1", "accession": "GCA_000214725.1", "taxid": 868131, "species_taxid": 868131, "relation_to_type": "type", "validated": true, "ani": 75.5399, "matched_fragments": 55, "total_fragments": 496, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 81.39, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_002496805.1", "gtdb_species": "s__Methanobacterium sp002496805", "ani": 83.5533, "matched_fragments": 392, "total_fragments": 496, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.15", "min_intra_species_ani": "97.17", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_012838205.1", "gtdb_species": "s__Methanobacterium sp012838205", "ani": 83.3041, "matched_fragments": 373, "total_fragments": 496, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobacterium", "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_002067065.1", "gtdb_species": "s__Methanobacterium sp002067065", "ani": 79.7823, "matched_fragments": 305, "total_fragments": 496, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobacterium", "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_016217785.1", "gtdb_species": "s__Methanobacterium sp016217785", "ani": 79.3605, "matched_fragments": 254, "total_fragments": 496, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobacterium", "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_013403005.1", "gtdb_species": "s__Methanobacterium sp013403005", "ani": 78.7547, "matched_fragments": 241, "total_fragments": 496, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobacterium", "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": -0.425, "cell_length": 0.43, "doubling_h": 1.242, "growth_tmp": 37.376, "optimum_tmp": 38.25, "optimum_ph": 7.266, "genome_size": 2852958.26, "gc_content": 37.301, "coding_genes": 2358.066, "rRNA16S_genes": 2.5, "tRNA_genes": 43.45, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.05, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.954, "coccus_cell_shape": 0.045, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Archaea", "p__Methanobacteriota", "c__Methanobacteria", "o__Methanobacteriales", "f__Methanobacteriaceae", "g__Methanobacterium", "s__Methanobacterium sp020855015" ], "_genome_taxon": [ "Methanobacterium", "sp.", "d__Archaea", "p__Methanobacteriota", "c__Methanobacteria", "o__Methanobacteriales", "f__Methanobacteriaceae", "g__Methanobacterium", "s__Methanobacterium sp020855015", "Archaea", "Methanobacteriota", "Methanobacteria", "Methanobacteriales", "Methanobacteriaceae", "Methanobacterium", "Methanobacterium", "sp020855015" ], "_meo": [ { "id": "MEO_0000014", "label": "activated sludge" }, { "id": "MEO_0000119", "label": "bioreactor" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }