{ "type": "genome", "identifier": "GCA_902826115.1", "organism": "uncultured Nitrosomonas sp.", "title": "uncultured Nitrosomonas sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "UNIVERSITY OF WATERLOO", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902826115.1", "bioproject": "PRJEB30654", "biosample": "SAMEA6595136", "wgs_master": "CADEDO000000000.1", "refseq_category": "na", "taxid": "156424", "species_taxid": "156424", "organism_name": "uncultured Nitrosomonas sp.", "infraspecific_name": "", "isolate": "Nitrosomonas sp. RBC050", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/04/15", "asm_name": "RBC050", "submitter": "UNIVERSITY OF WATERLOO", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/826/115/GCA_902826115.1_RBC050", "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": "2020-04-15", "dateModified": "2020-04-15", "datePublished": "2020-04-15", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Nitrosomonas sp." ], "sample_taxid": [ "156424" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada" ], "sample_host_location_id": [], "data_size": "0.887 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", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3085633", "Number of Sequences": "123", "Longest Sequences (bp)": "281214", "N50 (bp)": "41665", "Gap Ratio (%)": "0.051853", "GCcontent (%)": "45.1", "Number of CDSs": "2643", "Average Protein Length": "326.8", "Coding Ratio (%)": "84.0", "Number of rRNAs": "1", "Number of tRNAs": "27", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nitrosomonas oligotropha", "strain": "strain=Nm45", "accession": "GCA_009833085.1", "taxid": 42354, "species_taxid": 42354, "relation_to_type": "type", "validated": true, "ani": 78.0497, "matched_fragments": 263, "total_fragments": 971, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrosomonas supralitoralis", "strain": "strain=APG5", "accession": "GCA_003011925.2", "taxid": 2116706, "species_taxid": 2116706, "relation_to_type": "type", "validated": true, "ani": 77.975, "matched_fragments": 228, "total_fragments": 971, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrosomonas ureae", "strain": "strain=Nm10", "accession": "GCA_001455205.1", "taxid": 44577, "species_taxid": 44577, "relation_to_type": "type", "validated": true, "ani": 77.8488, "matched_fragments": 236, "total_fragments": 971, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrosomonas ureae", "strain": "strain=Nm10", "accession": "GCA_900105875.1", "taxid": 44577, "species_taxid": 44577, "relation_to_type": "type", "validated": true, "ani": 77.8208, "matched_fragments": 238, "total_fragments": 971, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrosomonas aestuarii", "strain": "strain=Nm36", "accession": "GCA_003046585.1", "taxid": 52441, "species_taxid": 52441, "relation_to_type": "type", "validated": true, "ani": 76.3324, "matched_fragments": 87, "total_fragments": 971, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrosomonas marina", "strain": "strain=Nm22", "accession": "GCA_900110145.1", "taxid": 917, "species_taxid": 917, "relation_to_type": "type", "validated": true, "ani": 75.8305, "matched_fragments": 69, "total_fragments": 971, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_902826115.1", "gtdb_species": "s__Nitrosomonas sp902826115", "ani": 100.0, "matched_fragments": 964, "total_fragments": 971, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.11", "min_intra_species_ani": "98.94", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCA_017994575.1", "gtdb_species": "s__Nitrosomonas sp017994575", "ani": 93.3594, "matched_fragments": 709, "total_fragments": 971, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.80", "min_intra_species_ani": "99.80", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016721865.1", "gtdb_species": "s__Nitrosomonas sp016721865", "ani": 78.8142, "matched_fragments": 348, "total_fragments": 971, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosomonas", "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_000219585.1", "gtdb_species": "s__Nitrosomonas sp000219585", "ani": 78.7932, "matched_fragments": 384, "total_fragments": 971, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosomonas", "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_016708955.1", "gtdb_species": "s__Nitrosomonas sp016708955", "ani": 78.7587, "matched_fragments": 368, "total_fragments": 971, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosomonas", "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_017984435.1", "gtdb_species": "s__Nitrosomonas sp017984435", "ani": 78.4426, "matched_fragments": 374, "total_fragments": 971, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003201565.1", "gtdb_species": "s__Nitrosomonas sp003201565", "ani": 78.3571, "matched_fragments": 416, "total_fragments": 971, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003011925.2", "gtdb_species": "s__Nitrosomonas sp003011925", "ani": 77.944, "matched_fragments": 230, "total_fragments": 971, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosomonas", "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_900106555.1", "gtdb_species": "s__Nitrosomonas oligotropha_A", "ani": 77.7988, "matched_fragments": 279, "total_fragments": 971, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.13", "min_intra_species_ani": "95.07", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.80", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCA_902826915.1", "gtdb_species": "s__Nitrosomonas sp902826915", "ani": 77.2827, "matched_fragments": 222, "total_fragments": 971, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosomonas", "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": -0.016, "cell_length": 0.156, "doubling_h": 0.74, "growth_tmp": 27.75, "optimum_tmp": 27.2, "optimum_ph": 7.5, "genome_size": 3182652.593, "gc_content": 46.767, "coding_genes": 2822.875, "rRNA16S_genes": 1.0, "tRNA_genes": 40.75, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.666, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 1.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Nitrosomonadaceae", "g__Nitrosomonas", "s__Nitrosomonas sp902826115" ], "_genome_taxon": [ "uncultured", "Nitrosomonas", "sp.", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Nitrosomonadaceae", "g__Nitrosomonas", "s__Nitrosomonas sp902826115", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Burkholderiales", "Nitrosomonadaceae", "Nitrosomonas", "Nitrosomonas", "sp902826115" ], "_meo": [ { "id": "MEO_0000035", "label": "waste water" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }