{ "type": "genome", "identifier": "GCA_013203595.1", "organism": "Rhodospirillales bacterium", "title": "Rhodospirillales bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Universite Laval", "publication": [ {} ], "properties": { "assembly_accession": "GCA_013203595.1", "bioproject": "PRJNA616293", "biosample": "SAMN14944521", "wgs_master": "JABMNT000000000.1", "refseq_category": "na", "taxid": "2026786", "species_taxid": "2026786", "organism_name": "Rhodospirillales bacterium", "infraspecific_name": "", "isolate": "bin.668", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/06/01", "asm_name": "ASM1320359v1", "submitter": "Universite Laval", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/013/203/595/GCA_013203595.1_ASM1320359v1", "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": "2020-06-01", "dateModified": "2020-06-01", "datePublished": "2020-06-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Rhodospirillales bacterium" ], "sample_taxid": [ "2026786" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada:Ellesmere Island, Lake A" ], "sample_host_location_id": [], "data_size": "1.305 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 64.58, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4582399", "Number of Sequences": "288", "Longest Sequences (bp)": "121237", "N50 (bp)": "24527", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "56.7", "Number of CDSs": "4098", "Average Protein Length": "309.2", "Coding Ratio (%)": "83.0", "Number of rRNAs": "0", "Number of tRNAs": "18", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nisaea acidiphila", "strain": "strain=MEBiC11861", "accession": "GCA_024662015.1", "taxid": 1862145, "species_taxid": 1862145, "relation_to_type": "type", "validated": true, "ani": 75.3741, "matched_fragments": 51, "total_fragments": 1379, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum moscoviense", "strain": "strain=BB-1", "accession": "GCA_001650635.1", "taxid": 1437059, "species_taxid": 1437059, "relation_to_type": "type", "validated": true, "ani": 75.3497, "matched_fragments": 53, "total_fragments": 1379, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodospirillum rubrum", "strain": "strain=DSM 467", "accession": "GCA_019134555.1", "taxid": 1085, "species_taxid": 1085, "relation_to_type": "type", "validated": true, "ani": 75.2998, "matched_fragments": 50, "total_fragments": 1379, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodospirillum rubrum", "strain": "strain=ATCC 11170", "accession": "GCA_000013085.1", "taxid": 1085, "species_taxid": 1085, "relation_to_type": "type", "validated": true, "ani": 75.2998, "matched_fragments": 50, "total_fragments": 1379, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseospirillum parvum", "strain": "strain=930I", "accession": "GCA_900100455.1", "taxid": 83401, "species_taxid": 83401, "relation_to_type": "type", "validated": true, "ani": 74.9317, "matched_fragments": 54, "total_fragments": 1379, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 64.58, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_013203595.1", "gtdb_species": "s__JABMNT01 sp013203595", "ani": 100.0, "matched_fragments": 1363, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Casp-alpha2;g__JABMNT01", "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_002686255.1", "gtdb_species": "s__Casp-alpha2 sp002686255", "ani": 75.9625, "matched_fragments": 65, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Casp-alpha2;g__Casp-alpha2", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.76", "min_intra_species_ani": "99.74", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_002325375.1", "gtdb_species": "s__UBA1479 sp002325375", "ani": 75.8548, "matched_fragments": 100, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Casp-alpha2;g__UBA1479", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.20", "min_intra_species_ani": "96.43", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.85", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_016845145.1", "gtdb_species": "s__TMED8 sp016845145", "ani": 75.7676, "matched_fragments": 71, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Casp-alpha2;g__TMED8", "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_002433335.1", "gtdb_species": "s__UBA1479 sp002433335", "ani": 75.7433, "matched_fragments": 72, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Casp-alpha2;g__UBA1479", "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_002706405.1", "gtdb_species": "s__UBA1479 sp002706405", "ani": 75.557, "matched_fragments": 78, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Casp-alpha2;g__UBA1479", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.68", "min_intra_species_ani": "99.68", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_001510075.1", "gtdb_species": "s__Casp-alpha2 sp001510075", "ani": 75.5016, "matched_fragments": 54, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Casp-alpha2;g__Casp-alpha2", "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_014382345.1", "gtdb_species": "s__Casp-alpha2 sp014382345", "ani": 75.4887, "matched_fragments": 88, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Casp-alpha2;g__Casp-alpha2", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.86", "min_intra_species_ani": "99.86", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018662005.1", "gtdb_species": "s__JACNJU01 sp018662005", "ani": 75.4307, "matched_fragments": 65, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__2-02-FULL-58-16_A;g__JACNJU01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.92", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001650635.1", "gtdb_species": "s__Magnetospirillum moscoviense", "ani": 75.3497, "matched_fragments": 53, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Magnetospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.81", "min_intra_species_ani": "95.25", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.84", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_903853455.1", "gtdb_species": "s__Phaeospirillum sp903853455", "ani": 75.3276, "matched_fragments": 55, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_014859895.1", "gtdb_species": "s__JACZKS01 sp014859895", "ani": 75.0113, "matched_fragments": 61, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__JAHDSF01;g__JACZKS01", "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_017996735.1", "gtdb_species": "s__Niveispirillum sp017996735", "ani": 74.8735, "matched_fragments": 51, "total_fragments": 1379, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Azospirillales;f__Azospirillaceae;g__Niveispirillum", "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": -0.149, "cell_length": 0.277, "doubling_h": 0.851, "growth_tmp": 29.223, "optimum_tmp": 29.873, "optimum_ph": 6.714, "genome_size": 4309033.9, "gc_content": 61.073, "coding_genes": 3753.536, "rRNA16S_genes": 4.275, "tRNA_genes": 58.848, "gram_stain": 0.0, "sporulation": 0.027, "motility": 0.719, "range_salinity": 0.444, "facultative_respiration": 0.083, "anaerobic_respiration": 0.064, "aerobic_respiration": 0.852, "mesophilic_range_tmp": 0.942, "thermophilic_range_tmp": 0.028, "psychrophilic_range_tmp": 0.028, "bacillus_cell_shape": 0.623, "coccus_cell_shape": 0.085, "filament_cell_shape": 0.008, "coccobacillus_cell_shape": 0.059, "vibrio_cell_shape": 0.017, "spiral_cell_shape": 0.205 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Rhodospirillales_A", "f__Casp-alpha2", "g__JABMNT01", "s__JABMNT01 sp013203595" ], "_genome_taxon": [ "Rhodospirillales", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Rhodospirillales_A", "f__Casp-alpha2", "g__JABMNT01", "s__JABMNT01 sp013203595", "Bacteria", "Pseudomonadota", "Alphaproteobacteria", "Rhodospirillales", "A", "Casp-alpha2", "JABMNT01", "JABMNT01", "sp013203595" ], "_meo": [ { "id": "MEO_0000024", "label": "lake" }, { "id": "MEO_0001256", "label": "arctic" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }