{ "type": "genome", "identifier": "GCA_026416825.1", "organism": "Treponemataceae bacterium", "title": "Treponemataceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Universiti Teknologi Malaysia - Malaysia", "publication": [ {} ], "properties": { "assembly_accession": "GCA_026416825.1", "bioproject": "PRJEB4990", "biosample": "SAMN30305117", "wgs_master": "JAOAEK000000000.1", "refseq_category": "na", "taxid": "2854022", "species_taxid": "2854022", "organism_name": "Treponemataceae bacterium", "infraspecific_name": "", "isolate": "SKW258", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/11/27", "asm_name": "ASM2641682v1", "submitter": "Universiti Teknologi Malaysia - Malaysia", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/026/416/825/GCA_026416825.1_ASM2641682v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-11-27", "dateModified": "2022-11-27", "datePublished": "2022-11-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Treponemataceae bacterium" ], "sample_taxid": [ "2854022" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Malaysia: Sungkai, Perak" ], "sample_host_location_id": [], "data_size": "0.574 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 65.15, "contamination": 5.39, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1975873", "Number of Sequences": "389", "Longest Sequences (bp)": "37919", "N50 (bp)": "10003", "Gap Ratio (%)": "0.014222", "GCcontent (%)": "51.7", "Number of CDSs": "1384", "Average Protein Length": "336.2", "Coding Ratio (%)": "70.6", "Number of rRNAs": "1", "Number of tRNAs": "21", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Gracilinema caldarium", "strain": "strain=DSM 7334", "accession": "GCA_000219725.1", "taxid": 215591, "species_taxid": 215591, "relation_to_type": "type", "validated": true, "ani": 76.2302, "matched_fragments": 69, "total_fragments": 471, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 65.15, "contamination": 5.39, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004343725.1", "gtdb_species": "s__J25 sp004343725", "ani": 95.4047, "matched_fragments": 436, "total_fragments": 471, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Termitinemataceae;g__J25", "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": "conclusive" }, { "accession": "GCA_011328725.1", "gtdb_species": "s__Treponema_G caldarium_A", "ani": 76.6073, "matched_fragments": 59, "total_fragments": 471, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Termitinemataceae;g__Treponema_G", "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_012517385.1", "gtdb_species": "s__Treponema_G sp012517385", "ani": 76.4158, "matched_fragments": 63, "total_fragments": 471, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Termitinemataceae;g__Treponema_G", "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_000219725.1", "gtdb_species": "s__Treponema_G caldarium", "ani": 76.2302, "matched_fragments": 69, "total_fragments": 471, "gtdb_taxonomy": "d__Bacteria;p__Spirochaetota;c__Spirochaetia;o__Treponematales;f__Termitinemataceae;g__Treponema_G", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_gtdb_taxon": [ "d__Bacteria", "p__Spirochaetota", "c__Spirochaetia", "o__Treponematales", "f__Breznakiellaceae", "g__J25", "s__J25 sp004343725" ], "_genome_taxon": [ "Treponemataceae", "bacterium", "d__Bacteria", "p__Spirochaetota", "c__Spirochaetia", "o__Treponematales", "f__Breznakiellaceae", "g__J25", "s__J25 sp004343725", "Bacteria", "Spirochaetota", "Spirochaetia", "Treponematales", "Breznakiellaceae", "J25", "J25", "sp004343725" ], "_meo": [ { "id": "MEO_0000029", "label": "hot spring" }, { "id": "MEO_0000730", "label": "alkaline hot spring" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }