{ "type": "genome", "identifier": "GCA_934718295.1", "organism": "uncultured Methanobrevibacter sp.", "title": "uncultured Methanobrevibacter sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "stanford university school of medicine", "publication": [ {} ], "properties": { "assembly_accession": "GCA_934718295.1", "bioproject": "PRJEB49206", "biosample": "SAMEA13497628", "wgs_master": "CAKUZP000000000.1", "refseq_category": "na", "taxid": "253161", "species_taxid": "253161", "organism_name": "uncultured Methanobrevibacter sp.", "infraspecific_name": "", "isolate": "REFINED_METABAT215_SUBJECT_CONTIGS_1500_ASSEMBLY_K77_MERGED__Pilot_MoBio_Fiber_C_4_7003.198", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/15", "asm_name": "ERR7738546_bin.198", "submitter": "stanford university school of medicine", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/934/718/295/GCA_934718295.1_ERR7738546_bin.198", "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": "2022-04-15", "dateModified": "2022-04-15", "datePublished": "2022-04-15", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Methanobrevibacter sp." ], "sample_taxid": [ "253161" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "0.492 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1777524", "Number of Sequences": "26", "Longest Sequences (bp)": "367316", "N50 (bp)": "137643", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "31.0", "Number of CDSs": "1693", "Average Protein Length": "302.7", "Coding Ratio (%)": "86.5", "Number of rRNAs": "0", "Number of tRNAs": "31", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Methanobrevibacter smithii", "strain": "strain=ATCC 35061; PS; DSMZ 861", "accession": "GCA_000016525.1", "taxid": 2173, "species_taxid": 2173, "relation_to_type": "type", "validated": true, "ani": 98.0343, "matched_fragments": 549, "total_fragments": 581, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Methanobrevibacter woesei", "strain": "strain=DSM 11979", "accession": "GCA_003111605.1", "taxid": 190976, "species_taxid": 190976, "relation_to_type": "type", "validated": true, "ani": 80.4994, "matched_fragments": 255, "total_fragments": 581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methanobrevibacter oralis", "strain": "strain=DSM 7256", "accession": "GCA_001639275.1", "taxid": 66851, "species_taxid": 66851, "relation_to_type": "type", "validated": true, "ani": 79.5632, "matched_fragments": 277, "total_fragments": 581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methanobrevibacter gottschalkii", "strain": "strain=DSM 11977", "accession": "GCA_003814835.1", "taxid": 190974, "species_taxid": 190974, "relation_to_type": "type", "validated": true, "ani": 79.493, "matched_fragments": 264, "total_fragments": 581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methanobrevibacter cuticularis", "strain": "strain=DSM 11139", "accession": "GCA_001639285.1", "taxid": 47311, "species_taxid": 47311, "relation_to_type": "type", "validated": true, "ani": 76.5433, "matched_fragments": 90, "total_fragments": 581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methanobrevibacter arboriphilus", "strain": "strain=DH1", "accession": "GCA_002072215.1", "taxid": 39441, "species_taxid": 39441, "relation_to_type": "type", "validated": true, "ani": 76.4972, "matched_fragments": 113, "total_fragments": 581, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000016525.1", "gtdb_species": "s__Methanobrevibacter_A smithii", "ani": 98.0343, "matched_fragments": 549, "total_fragments": 581, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobrevibacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.32", "min_intra_species_ani": "97.88", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.83", "num_clustered_genomes": 24, "status": "conclusive" }, { "accession": "GCF_002252585.1", "gtdb_species": "s__Methanobrevibacter_A smithii_A", "ani": 93.0789, "matched_fragments": 544, "total_fragments": 581, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobrevibacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.61", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 16, "status": "-" }, { "accession": "GCF_003111605.1", "gtdb_species": "s__Methanobrevibacter_A woesei", "ani": 80.5049, "matched_fragments": 254, "total_fragments": 581, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobrevibacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.82", "min_intra_species_ani": "96.82", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001639275.1", "gtdb_species": "s__Methanobrevibacter_A oralis", "ani": 79.5457, "matched_fragments": 278, "total_fragments": 581, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobrevibacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.88", "min_intra_species_ani": "99.83", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.97", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_003814835.1", "gtdb_species": "s__Methanobrevibacter_A gottschalkii", "ani": 79.493, "matched_fragments": 264, "total_fragments": 581, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobrevibacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.46", "min_intra_species_ani": "98.93", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_902777885.1", "gtdb_species": "s__Methanobrevibacter_A sp902777885", "ani": 78.9913, "matched_fragments": 147, "total_fragments": 581, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobrevibacter_A", "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_900317865.1", "gtdb_species": "s__Methanobrevibacter_A sp900317865", "ani": 78.9817, "matched_fragments": 232, "total_fragments": 581, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobrevibacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.42", "min_intra_species_ani": "95.98", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.76", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCA_902783085.1", "gtdb_species": "s__Methanobrevibacter_A sp902783085", "ani": 78.2814, "matched_fragments": 218, "total_fragments": 581, "gtdb_taxonomy": "d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobrevibacter_A", "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": -0.345, "cell_length": -0.04, "doubling_h": 1.37, "growth_tmp": 35.769, "optimum_tmp": 35.515, "optimum_ph": 7.107, "genome_size": 2226869.989, "gc_content": 30.616, "coding_genes": 1977.708, "rRNA16S_genes": 2.0, "tRNA_genes": 39.916, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, 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"\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }