{ "type": "genome", "identifier": "GCA_013697655.1", "organism": "Nitrosospira sp.", "title": "Nitrosospira sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Monash University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_013697655.1", "bioproject": "PRJNA630822", "biosample": "SAMN15052033", "wgs_master": "JACCWK000000000.1", "refseq_category": "na", "taxid": "38080", "species_taxid": "38080", "organism_name": "Nitrosospira sp.", "infraspecific_name": "", "isolate": "MGR_bin150", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/26", "asm_name": "ASM1369765v1", "submitter": "Monash University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/013/697/655/GCA_013697655.1_ASM1369765v1", "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": "2020-07-26", "dateModified": "2020-07-26", "datePublished": "2020-07-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Nitrosospira sp." ], "sample_taxid": [ "38080" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica: Mackay Glacier regions" ], "sample_host_location_id": [], "data_size": "0.873 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)": "3026116", "Number of Sequences": "258", "Longest Sequences (bp)": "75841", "N50 (bp)": "19055", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "51.4", "Number of CDSs": "2701", "Average Protein Length": "302.5", "Coding Ratio (%)": "81.0", "Number of rRNAs": "1", "Number of tRNAs": "34", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nitrosospira lacus", "strain": "strain=APG3", "accession": "GCA_000355765.4", "taxid": 1288494, "species_taxid": 1288494, "relation_to_type": "type", "validated": true, "ani": 79.2273, "matched_fragments": 452, "total_fragments": 872, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrosospira briensis", "strain": "strain=C-128", "accession": "GCA_000619905.2", "taxid": 35799, "species_taxid": 35799, "relation_to_type": "reftype", "validated": true, "ani": 77.7553, "matched_fragments": 292, "total_fragments": 872, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrosospira multiformis", "strain": "strain=ATCC 25196", "accession": "GCA_000196355.1", "taxid": 1231, "species_taxid": 1231, "relation_to_type": "suspected-type", "validated": true, "ani": 76.7317, "matched_fragments": 138, "total_fragments": 872, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_013697655.1", "gtdb_species": "s__Nitrosospira sp013697655", "ani": 100.0, "matched_fragments": 868, "total_fragments": 872, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosospira", "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": "GCF_900102495.1", "gtdb_species": "s__Nitrosospira sp900102495", "ani": 79.4375, "matched_fragments": 419, "total_fragments": 872, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosospira", "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_900103165.1", "gtdb_species": "s__Nitrosospira multiformis_D", "ani": 79.3403, "matched_fragments": 478, "total_fragments": 872, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosospira", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.83", "min_intra_species_ani": "96.49", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.85", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000355765.4", "gtdb_species": "s__Nitrosospira lacus", "ani": 79.2166, "matched_fragments": 453, "total_fragments": 872, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosospira", "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_000832065.1", "gtdb_species": "s__Nitrosospira sp000832065", "ani": 79.0289, "matched_fragments": 431, "total_fragments": 872, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosospira", "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_003046405.1", "gtdb_species": "s__Nitrosospira sp003046405", "ani": 77.7091, "matched_fragments": 295, "total_fragments": 872, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosospira", "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_900142705.1", "gtdb_species": "s__Nitrosospira sp900142705", "ani": 77.5946, "matched_fragments": 260, "total_fragments": 872, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosospira", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.06", "min_intra_species_ani": "96.30", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900113575.1", "gtdb_species": "s__Nitrosospira sp900113575", "ani": 77.2832, "matched_fragments": 168, "total_fragments": 872, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosospira", "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_003633815.1", "gtdb_species": "s__Nitrosospira sp003633815", "ani": 77.096, "matched_fragments": 174, "total_fragments": 872, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Nitrosomonadaceae;g__Nitrosospira", "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": 0.0, "cell_length": 0.0, "doubling_h": null, "growth_tmp": 26.75, "optimum_tmp": null, "optimum_ph": null, "genome_size": 3231149.96, "gc_content": 52.758, "coding_genes": 2834.666, "rRNA16S_genes": 1.0, "tRNA_genes": 43.666, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "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": 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__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Nitrosomonadaceae", "g__Nitrosospira", "s__Nitrosospira sp013697655" ], "_genome_taxon": [ "Nitrosospira", "sp.", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Nitrosomonadaceae", "g__Nitrosospira", "s__Nitrosospira sp013697655", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Burkholderiales", "Nitrosomonadaceae", "Nitrosospira", "Nitrosospira", "sp013697655" ], "_meo": [ { "id": "MEO_0000007", "label": "soil" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }