{ "type": "genome", "identifier": "GCA_934692965.1", "organism": "uncultured Treponema sp.", "title": "uncultured Treponema 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_934692965.1", "bioproject": "PRJEB49206", "biosample": "SAMEA13481009", "wgs_master": "CAKUUQ000000000.1", "refseq_category": "na", "taxid": "162155", "species_taxid": "162155", "organism_name": "uncultured Treponema sp.", "infraspecific_name": "", "isolate": "REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Hadza_MoBio_hadza-I-L_G_3_2391.229", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/16", "asm_name": "ERR7738271_bin.229", "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/934/692/965/GCA_934692965.1_ERR7738271_bin.229", "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": "2022-04-16", "dateModified": "2022-04-16", "datePublished": "2022-04-16", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Treponema sp." ], "sample_taxid": [ "162155" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Tanzania" ], "sample_host_location_id": [], "data_size": "0.683 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", 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795, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_002296965.1", "gtdb_species": "s__Treponema_D sp002296965", "ani": 98.7041, "matched_fragments": 560, "total_fragments": 795, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.93", "min_intra_species_ani": "99.91", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_000195275.1", "gtdb_species": "s__Treponema_D succinifaciens", "ani": 83.1995, "matched_fragments": 96, "total_fragments": 795, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.40", "min_intra_species_ani": "98.24", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_002478955.1", "gtdb_species": "s__Treponema_D sp002478955", "ani": 82.0582, "matched_fragments": 66, "total_fragments": 795, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.79", "min_intra_species_ani": "97.79", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.82", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900317625.1", "gtdb_species": "s__Treponema_D sp900317625", "ani": 79.5785, "matched_fragments": 60, "total_fragments": 795, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.21", "min_intra_species_ani": "99.03", 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"num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.59, "cell_length": 0.834, "doubling_h": 0.49, "growth_tmp": 35.047, "optimum_tmp": 33.75, "optimum_ph": 7.183, "genome_size": 2974429.677, "gc_content": 43.752, "coding_genes": 2837.944, "rRNA16S_genes": 2.285, "tRNA_genes": 45.166, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "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": 0.0, "coccus_cell_shape": 0.055, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.055, "spiral_cell_shape": 0.888 }, "_gtdb_taxon": [ "d__Bacteria", "p__Spirochaetota", "c__Spirochaetia", "o__Treponematales", "f__Treponemataceae", "g__Treponema_D", "s__Treponema_D sp002296965" ], "_genome_taxon": [ "uncultured", "Treponema", "sp.", 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