{ "type": "genome", "identifier": "GCF_018224925.1", "organism": "Magnetospirillum sulfuroxidans", "title": "Magnetospirillum sulfuroxidans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SciBear LLC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_018224925.1", "bioproject": "PRJNA224116", "biosample": "SAMN18836303", "wgs_master": "JAGTUF000000000.1", "refseq_category": "reference genome", "taxid": "611300", "species_taxid": "611300", "organism_name": "Magnetospirillum sulfuroxidans", "infraspecific_name": "strain=J10", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/05/02", "asm_name": "ASM1822492v1", "asm_submitter": "SciBear LLC", "gbrs_paired_asm": "GCA_018224925.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/018/224/925/GCF_018224925.1_ASM1822492v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4132710", "genome_size_ungapped": "4132510", "gc_percent": "62.000000", "replicon_count": "0", "scaffold_count": "60", "contig_count": "60", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_018224925.1-RS_2024_05_18", "annotation_date": "2024-05-18", "total_gene_count": "3939", "protein_coding_gene_count": "3850", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-05-02", "dateModified": "2021-05-02", "datePublished": "2021-05-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Magnetospirillum sulfuroxidans" ], "sample_taxid": [ "611300" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Netherlands: Delft" ], "sample_host_location_id": [], "data_size": "1.147 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": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4132710", "Number of Sequences": "60", "Longest Sequences (bp)": "816984", "N50 (bp)": "150424", "Gap Ratio (%)": "0.004839", "GCcontent (%)": "61.9", "Number of CDSs": "3911", "Average Protein Length": "321.7", "Coding Ratio (%)": "91.3", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Magnetospirillum gryphiswaldense", "strain": "strain=MSR-1", "accession": "GCA_002995515.1", "taxid": 55518, "species_taxid": 55518, "relation_to_type": "type", "validated": true, "ani": 84.801, "matched_fragments": 953, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum gryphiswaldense", "strain": "strain=MSR-1", "accession": "GCA_000513295.1", "taxid": 55518, "species_taxid": 55518, "relation_to_type": "type", "validated": true, "ani": 84.7341, "matched_fragments": 957, "total_fragments": 1347, "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": 80.5528, "matched_fragments": 643, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum aberrantis", "strain": "strain=SpK", "accession": "GCA_011022235.1", "taxid": 1105283, "species_taxid": 1105283, "relation_to_type": "type", "validated": true, "ani": 80.1473, "matched_fragments": 612, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum kuznetsovii", "strain": "strain=LBB-42", "accession": "GCA_003284725.1", "taxid": 2053833, "species_taxid": 2053833, "relation_to_type": "type", "validated": true, "ani": 78.8419, "matched_fragments": 505, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum marisnigri", "strain": "strain=SP-1", "accession": "GCA_001650715.1", "taxid": 1285242, "species_taxid": 1285242, "relation_to_type": "type", "validated": true, "ani": 78.7669, "matched_fragments": 530, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum magnetotacticum", "strain": "strain=MS-1", "accession": "GCA_000829825.1", "taxid": 188, "species_taxid": 188, "relation_to_type": "type", "validated": true, "ani": 78.7189, "matched_fragments": 487, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum caucaseum", "strain": "strain=SO-1", "accession": "GCA_000342045.1", "taxid": 1244869, "species_taxid": 1244869, "relation_to_type": "type", "validated": true, "ani": 78.7132, "matched_fragments": 528, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Magnetospirillum molischianum", "strain": "strain=DSM 120", "accession": "GCA_000294655.1", "taxid": 1083, "species_taxid": 1083, "relation_to_type": "type", "validated": true, "ani": 77.7867, "matched_fragments": 252, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovastum atsumiense", "strain": "strain=G2-11", "accession": "GCA_937425535.1", "taxid": 504468, "species_taxid": 504468, "relation_to_type": "type", "validated": true, "ani": 75.948, "matched_fragments": 192, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovarius crocodyli", "strain": "strain=CCP-6", "accession": "GCA_004005855.1", "taxid": 1979269, "species_taxid": 1979269, "relation_to_type": "type", "validated": true, "ani": 75.7875, "matched_fragments": 122, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agrobacterium leguminum", "strain": "strain=MOPV5", "accession": "GCA_015704895.1", "taxid": 2792015, "species_taxid": 2792015, "relation_to_type": "type", "validated": true, "ani": 75.746, "matched_fragments": 88, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodobacter ruber", "strain": "strain=CCP-1", "accession": "GCA_009908315.1", "taxid": 1985673, "species_taxid": 1985673, "relation_to_type": "type", "validated": true, "ani": 75.7069, "matched_fragments": 85, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halovulum marinum", "strain": "strain=2CG4", "accession": "GCA_009697225.1", "taxid": 2662447, "species_taxid": 2662447, "relation_to_type": "type", "validated": true, "ani": 75.665, "matched_fragments": 115, "total_fragments": 1347, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_018224925.1", "gtdb_species": "s__Magnetospirillum sp018224925", "ani": 100.0, "matched_fragments": 1343, "total_fragments": 1347, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Magnetospirillum", "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_000513295.1", "gtdb_species": "s__Magnetospirillum gryphiswaldense", "ani": 84.7133, "matched_fragments": 959, "total_fragments": 1347, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Magnetospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.87", "min_intra_species_ani": "97.87", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_006218045.1", "gtdb_species": "s__Magnetospirillum sp006218045", "ani": 84.576, "matched_fragments": 958, "total_fragments": 1347, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Magnetospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_001898825.1", "gtdb_species": "s__Magnetospirillum sp001898825", "ani": 83.2433, "matched_fragments": 934, "total_fragments": 1347, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Magnetospirillum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.98", "min_intra_species_ani": "95.98", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002435715.1", "gtdb_species": "s__Magnetospirillum sp002435715", "ani": 83.1686, "matched_fragments": 909, "total_fragments": 1347, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Magnetospirillum", "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_011022235.1", "gtdb_species": "s__Magnetospirillum aberrantis", "ani": 80.152, "matched_fragments": 611, "total_fragments": 1347, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Magnetospirillum", "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_003284725.1", "gtdb_species": "s__Phaeospirillum kuznetsovii", "ani": 78.8417, "matched_fragments": 505, "total_fragments": 1347, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "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_001650715.1", "gtdb_species": "s__Phaeospirillum marisnigri", "ani": 78.7593, "matched_fragments": 531, "total_fragments": 1347, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Phaeospirillum", "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": -0.277, "cell_length": 0.477, "doubling_h": null, "growth_tmp": 29.0, "optimum_tmp": 29.333, "optimum_ph": null, "genome_size": 4663557.85, "gc_content": 65.183, "coding_genes": 4233.333, "rRNA16S_genes": 2.0, "tRNA_genes": 49.25, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 0.0, "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": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 1.0 }, "_genome_taxon": [ "Magnetospirillum", "sulfuroxidans" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }