{ "type": "genome", "identifier": "GCA_024697295.1", "organism": "Treponema sp.", "title": "Treponema sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Baqiyatallah University of Medical Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCA_024697295.1", "bioproject": "PRJNA746430", "biosample": "SAMN20246819", "wgs_master": "JAILFZ000000000.1", "refseq_category": "na", "taxid": "166", "species_taxid": "166", "organism_name": "Treponema sp.", "infraspecific_name": "", "isolate": "RUI085", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/08/15", "asm_name": "ASM2469729v1", "submitter": "Baqiyatallah University of Medical Sciences", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/024/697/295/GCA_024697295.1_ASM2469729v1", "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": "2022-08-15", "dateModified": "2022-08-15", "datePublished": "2022-08-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Treponema sp." ], "sample_taxid": [ "166" ], "sample_host_organism": [ "camel" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Iran: Karaj" ], "sample_host_location_id": [], "data_size": "0.555 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.67, "contamination": 4.17, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1934503", "Number of Sequences": "205", "Longest Sequences (bp)": "60827", "N50 (bp)": "13930", "Gap Ratio (%)": 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"species_taxid": 744512, "relation_to_type": "suspected-type", "validated": true, "ani": 77.4887, "matched_fragments": 54, "total_fragments": 539, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Treponema porcinum", "strain": "strain=ATCC BAA-908", "accession": "GCA_900167145.1", "taxid": 261392, "species_taxid": 261392, "relation_to_type": "type", "validated": true, "ani": 76.6951, "matched_fragments": 56, "total_fragments": 539, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.67, "contamination": 4.17, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_016283615.1", "gtdb_species": "s__Treponema_D sp016283615", "ani": 92.4235, "matched_fragments": 455, "total_fragments": 539, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "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_003447785.1", "gtdb_species": "s__Treponema_D sp003447785", "ani": 90.9309, "matched_fragments": 373, "total_fragments": 539, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.19", "min_intra_species_ani": "95.96", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.73", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_016297415.1", "gtdb_species": "s__Treponema_D sp016297415", "ani": 78.3555, "matched_fragments": 155, "total_fragments": 539, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "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_900167025.1", "gtdb_species": "s__Treponema_D berlinense", "ani": 78.3334, "matched_fragments": 160, "total_fragments": 539, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.85", "min_intra_species_ani": "98.81", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_002477955.1", "gtdb_species": "s__Treponema_D sp002477955", "ani": 78.221, "matched_fragments": 126, "total_fragments": 539, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Treponemataceae;g__Treponema_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.57", "min_intra_species_ani": "99.37", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.86", 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