{ "type": "genome", "identifier": "GCA_934271445.1", "organism": "uncultured Oxalobacter sp.", "title": "uncultured Oxalobacter 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_934271445.1", "bioproject": "PRJEB49206", "biosample": "SAMEA13523114", "wgs_master": "CAKQRO000000000.1", "refseq_category": "na", "taxid": "337245", "species_taxid": "337245", "organism_name": "uncultured Oxalobacter sp.", "infraspecific_name": "", "isolate": "REFINED_METABAT215_TOP10_CONTIGS_1500_ASSEMBLY_K77_MERGED__Nepal_MoBio_Fiber-Hadza-Nepal_F_7_RAU0027AZ.60", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/15", "asm_name": "ERR7738582_bin.60", "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/934/271/445/GCA_934271445.1_ERR7738582_bin.60", "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 Oxalobacter sp." ], "sample_taxid": [ "337245" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Nepal" ], "sample_host_location_id": [], "data_size": "0.470 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 59.38, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1644291", "Number of Sequences": "218", "Longest Sequences (bp)": "36243", "N50 (bp)": "10331", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "54.1", "Number of CDSs": "1309", "Average Protein Length": "304.0", "Coding Ratio (%)": "72.6", "Number of rRNAs": "0", "Number of tRNAs": "27", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [], "cc_result": { "completeness": 59.38, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_900760095.1", "gtdb_species": "s__Oxalobacter sp900760095", "ani": 79.5486, "matched_fragments": 264, "total_fragments": 440, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Oxalobacter", "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_000158475.2", "gtdb_species": "s__Oxalobacter formigenes_B", "ani": 79.4401, "matched_fragments": 264, "total_fragments": 440, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Oxalobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.93", "min_intra_species_ani": "99.93", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002127965.1", "gtdb_species": "s__Oxalobacter formigenes", "ani": 78.3829, "matched_fragments": 196, "total_fragments": 440, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Oxalobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.83", "min_intra_species_ani": "99.22", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.98", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_905202055.1", "gtdb_species": "s__Oxalobacter sp905202055", "ani": 78.2556, "matched_fragments": 181, "total_fragments": 440, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Oxalobacter", "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": -0.398, "cell_length": 0.079, "doubling_h": null, "growth_tmp": 29.5, "optimum_tmp": 37.0, "optimum_ph": null, "genome_size": 2463878.833, "gc_content": 50.375, "coding_genes": 2217.667, "rRNA16S_genes": 1.5, "tRNA_genes": 47.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": null, "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": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Burkholderiaceae", "g__Oxalobacter", "s__Oxalobacter paeniformigenes" ], "_genome_taxon": [ "uncultured", "Oxalobacter", "sp.", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Burkholderiaceae", "g__Oxalobacter", "s__Oxalobacter paeniformigenes", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Burkholderiales", "Burkholderiaceae", "Oxalobacter", "Oxalobacter", "paeniformigenes" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }