{ "type": "genome", "identifier": "GCA_020430265.1", "organism": "Nitrospira sp.", "title": "Nitrospira sp.", "description": "derived from metagenome; fragmented assembly", "data type": "Genome sequencing and assembly", "organization": "The University Hong Kong", "publication": [ {} ], "properties": { "assembly_accession": "GCA_020430265.1", "bioproject": "PRJNA432264", "biosample": "SAMN14563924", "wgs_master": "JAGQKF000000000.1", "refseq_category": "na", "taxid": "70125", "species_taxid": "70125", "organism_name": "Nitrospira sp.", "infraspecific_name": "", "isolate": "HKST-UBA07", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/10/12", "asm_name": "ASM2043026v1", "submitter": "The University Hong Kong", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/020/430/265/GCA_020430265.1_ASM2043026v1", "excluded_from_refseq": "derived from metagenome; fragmented assembly", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-10-12", "dateModified": "2021-10-12", "datePublished": "2021-10-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Nitrospira sp." ], "sample_taxid": [ "70125" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Hong Kong SAR, Shatin waste water treatment plant" ], "sample_host_location_id": [], "data_size": "1.048 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 76.56, "contamination": 5.3, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3668804", "Number of Sequences": "883", "Longest Sequences (bp)": "36096", "N50 (bp)": "4992", "Gap Ratio (%)": "2.406506", "GCcontent (%)": "50.1", "Number of CDSs": "2680", "Average Protein Length": "243.8", "Coding Ratio (%)": "53.4", "Number of rRNAs": "0", "Number of tRNAs": "26", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [], "cc_result": { "completeness": 76.56, "contamination": 5.3, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_902500695.1", "gtdb_species": "s__UBA8639 sp902500695", "ani": 84.8511, "matched_fragments": 506, "total_fragments": 721, "gtdb_taxonomy": "d__Bacteria;p__Nitrospirota;c__Nitrospiria;o__Nitrospirales;f__UBA8639;g__UBA8639", "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_013817135.1", "gtdb_species": "s__UBA8639 sp013817135", "ani": 84.3989, "matched_fragments": 320, "total_fragments": 721, 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"d__Bacteria;p__Nitrospirota;c__Nitrospiria;o__Nitrospirales;f__UBA8639;g__UBA8639", "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_003235785.1", "gtdb_species": "s__UBA8639 sp003235785", "ani": 77.4109, "matched_fragments": 63, "total_fragments": 721, "gtdb_taxonomy": "d__Bacteria;p__Nitrospirota;c__Nitrospiria;o__Nitrospirales;f__UBA8639;g__UBA8639", "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": -0.388, "cell_length": null, "doubling_h": 1.079, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": 4195141.429, "gc_content": 59.803, "coding_genes": 3920.25, "rRNA16S_genes": 1.0, "tRNA_genes": 46.5, "gram_stain": 0.0, "sporulation": 0.0, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "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": 0.0, "vibrio_cell_shape": 1.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Nitrospirota", "c__Nitrospiria", "o__Nitrospirales", "f__UBA8639", "g__UBA8639", "s__UBA8639 sp020632595" ], "_genome_taxon": [ "Nitrospira", "sp.", "d__Bacteria", "p__Nitrospirota", "c__Nitrospiria", "o__Nitrospirales", "f__UBA8639", "g__UBA8639", "s__UBA8639 sp020632595", "Bacteria", "Nitrospirota", "Nitrospiria", "Nitrospirales", "UBA8639", "UBA8639", "UBA8639", "sp020632595" ], "_meo": [ { "id": "MEO_0000014", "label": "activated sludge" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }