{ "type": "genome", "identifier": "GCF_018324385.1", "organism": "Ferrigenium kumadai", "title": "Ferrigenium kumadai", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Nagoya University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_018324385.1", "bioproject": "PRJNA224116", "biosample": "SAMD00161215", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1682490", "species_taxid": "1682490", "organism_name": "Ferrigenium kumadai", "infraspecific_name": "strain=An22", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/03/16", "asm_name": "ASM1832438v1", "asm_submitter": "Nagoya University", "gbrs_paired_asm": "GCA_018324385.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/018/324/385/GCF_018324385.1_ASM1832438v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2572603", "genome_size_ungapped": "2572603", "gc_percent": "60.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_018324385.1-RS_2024_05_06", "annotation_date": "2024-05-06", "total_gene_count": "2495", "protein_coding_gene_count": "2431", "non_coding_gene_count": "60", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-03-16", "dateModified": "2021-03-16", "datePublished": "2021-03-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Ferrigenium kumadai" ], "sample_taxid": [ "1682490" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan:Aichi, Anjo" ], "sample_host_location_id": [], "data_size": "0.719 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)": "2572603", "Number of Sequences": "1", "Longest Sequences (bp)": "2572603", "N50 (bp)": "2572603", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.6", "Number of CDSs": "2428", "Average Protein Length": "326.0", "Coding Ratio (%)": "92.3", "Number of rRNAs": "6", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Ferrigenium kumadai", "strain": "strain=An22", "accession": "GCA_018324385.1", "taxid": 1682490, "species_taxid": 1682490, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 856, "total_fragments": 857, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Ferriphaselus amnicola", "strain": "strain=OYT1", "accession": "GCA_000974685.2", "taxid": 1188319, "species_taxid": 1188319, "relation_to_type": "type", "validated": true, "ani": 78.8603, "matched_fragments": 263, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfurimicrobium lacus", "strain": "strain=skT11", "accession": "GCA_011764585.1", "taxid": 2715678, "species_taxid": 2715678, "relation_to_type": "type", "validated": true, "ani": 77.9641, "matched_fragments": 243, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera humireducens", "strain": "strain=SgZ-1", "accession": "GCA_001051995.2", "taxid": 1134435, "species_taxid": 1134435, "relation_to_type": "type", "validated": true, "ani": 77.9154, "matched_fragments": 194, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera phenylacetica", "strain": "strain=B4P", "accession": "GCA_000310225.1", "taxid": 164400, "species_taxid": 164400, "relation_to_type": "type", "validated": true, "ani": 77.8911, "matched_fragments": 203, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azoarcus rhizosphaerae", "strain": "strain=CC-YHH848", "accession": "GCA_004801305.1", "taxid": 2565932, "species_taxid": 2565932, "relation_to_type": "type", "validated": true, "ani": 77.7714, "matched_fragments": 236, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium paludis", "strain": "strain=IIBBL 257-1", "accession": "GCA_008275125.1", "taxid": 2605945, "species_taxid": 2605945, "relation_to_type": "type", "validated": true, "ani": 77.6611, "matched_fragments": 179, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfuritortus calidifontis", "strain": "strain=DSM 103923", "accession": "GCA_004346085.1", "taxid": 1914471, "species_taxid": 1914471, "relation_to_type": "type", "validated": true, "ani": 77.6382, "matched_fragments": 204, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera aminoaromatica", "strain": "strain=S2", "accession": "GCA_000310185.1", "taxid": 164330, "species_taxid": 164330, "relation_to_type": "type", "validated": true, "ani": 77.6318, "matched_fragments": 195, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera chlorobenzoica", "strain": "strain=3CB-1", "accession": "GCA_900108255.1", "taxid": 96773, "species_taxid": 96773, "relation_to_type": "type", "validated": true, "ani": 77.5918, "matched_fragments": 183, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium alticapitis", "strain": "strain=MWU14-2602", "accession": "GCA_002924365.1", "taxid": 2073169, "species_taxid": 2073169, "relation_to_type": "type", "validated": true, "ani": 77.5135, "matched_fragments": 164, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gallionella capsiferriformans", "strain": "strain=ES-2", "accession": "GCA_000145255.1", "taxid": 370405, "species_taxid": 370405, "relation_to_type": "type", "validated": true, "ani": 77.4788, "matched_fragments": 182, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium subtsugae", "strain": "strain=PRAA4-1", "accession": "GCA_001676875.1", "taxid": 251747, "species_taxid": 251747, "relation_to_type": "type", "validated": true, "ani": 77.4116, "matched_fragments": 199, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia agilis", "strain": "strain=JCM 31605", "accession": "GCA_024756255.1", "taxid": 1811226, "species_taxid": 1811226, "relation_to_type": "type", "validated": true, "ani": 77.3702, "matched_fragments": 191, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia solisilvae", "strain": "strain=JCM 31607", "accession": "GCA_024753215.1", "taxid": 1811225, "species_taxid": 1811225, "relation_to_type": "type", "validated": true, "ani": 77.3319, "matched_fragments": 195, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cupriavidus gilardii", "strain": "strain=CCUG 38401", "accession": "GCA_008801915.1", "taxid": 82541, "species_taxid": 82541, "relation_to_type": "type", "validated": true, "ani": 77.2911, "matched_fragments": 192, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cupriavidus gilardii", "strain": "strain=ATCC 700815", "accession": "GCA_013004615.1", "taxid": 82541, "species_taxid": 82541, "relation_to_type": "type", "validated": true, "ani": 77.2622, "matched_fragments": 189, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia perseverans", "strain": "strain=INN12", "accession": "GCA_022870505.1", "taxid": 2615214, "species_taxid": 2615214, "relation_to_type": "type", "validated": true, "ani": 77.2315, "matched_fragments": 195, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cupriavidus cauae", "strain": "strain=MKL-01", "accession": "GCA_008632125.1", "taxid": 2608999, "species_taxid": 2608999, "relation_to_type": "type", "validated": true, "ani": 77.214, "matched_fragments": 209, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia agri", "strain": "strain=JCM 31661", "accession": "GCA_024753255.1", "taxid": 1886785, "species_taxid": 1886785, "relation_to_type": "type", "validated": true, "ani": 77.1844, "matched_fragments": 189, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomethylobacillus aquaticus", "strain": "strain=H-5", "accession": "GCA_003730115.1", "taxid": 2676064, "species_taxid": 2676064, "relation_to_type": "type", "validated": true, "ani": 77.1778, "matched_fragments": 120, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paludibacterium paludis", "strain": "strain=BCRC 80514", "accession": "GCA_018802605.1", "taxid": 1225769, "species_taxid": 1225769, "relation_to_type": "type", "validated": true, "ani": 77.1658, "matched_fragments": 115, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfuricella denitrificans", "strain": "strain=skB26", "accession": "GCA_000297055.2", "taxid": 649841, "species_taxid": 649841, "relation_to_type": "type", "validated": true, "ani": 77.1296, "matched_fragments": 152, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacillus flagellatus", "strain": "strain=KT", "accession": "GCA_000013705.1", "taxid": 405, "species_taxid": 405, "relation_to_type": "type", "validated": true, "ani": 76.8802, "matched_fragments": 77, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paludibacterium paludis", "strain": "strain=KCTC 32182", "accession": "GCA_014652495.1", "taxid": 1225769, "species_taxid": 1225769, "relation_to_type": "type", "validated": true, "ani": 76.6764, "matched_fragments": 117, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leeia aquatica", "strain": "strain=IMCC25680", "accession": "GCA_012641365.1", "taxid": 2725557, "species_taxid": 2725557, "relation_to_type": "type", "validated": true, "ani": 76.636, "matched_fragments": 97, "total_fragments": 857, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_018324385.1", "gtdb_species": "s__Gallionella kumadai", "ani": 100.0, "matched_fragments": 855, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "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_001801085.1", "gtdb_species": "s__Gallionella sp001801085", "ani": 82.8416, "matched_fragments": 439, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.85", "min_intra_species_ani": "99.85", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_001801105.1", "gtdb_species": "s__Gallionella sp001801105", "ani": 82.6987, "matched_fragments": 394, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "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_016716325.1", "gtdb_species": "s__Gallionella sp016716325", "ani": 81.7471, "matched_fragments": 430, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "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_016183575.1", "gtdb_species": "s__Gallionella sp016183575", "ani": 81.6036, "matched_fragments": 289, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "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_016177795.1", "gtdb_species": "s__Gallionella sp016177795", "ani": 81.0549, "matched_fragments": 302, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "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_016218415.1", "gtdb_species": "s__Gallionella sp016218415", "ani": 81.0128, "matched_fragments": 395, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "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_001801215.1", "gtdb_species": "s__Gallionella sp001801215", "ani": 80.9487, "matched_fragments": 432, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.86", "min_intra_species_ani": "99.86", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016208015.1", "gtdb_species": "s__Sideroxydans sp016208015", "ani": 80.8839, "matched_fragments": 432, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Sideroxydans", "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_016197305.1", "gtdb_species": "s__Gallionella sp016197305", "ani": 80.8301, "matched_fragments": 338, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "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_016235045.1", "gtdb_species": "s__Sideroxydans sp016235045", "ani": 80.5583, "matched_fragments": 424, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Sideroxydans", "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_001801175.1", "gtdb_species": "s__Gallionella sp001801175", "ani": 80.2906, "matched_fragments": 351, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "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_011620315.1", "gtdb_species": "s__Sideroxydans sp011620315", "ani": 80.1933, "matched_fragments": 361, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Sideroxydans", "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_001801055.1", "gtdb_species": "s__Gallionella sp001801055", "ani": 79.8692, "matched_fragments": 257, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "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_018819205.1", "gtdb_species": "s__Sideroxydans sp018819205", "ani": 79.6145, "matched_fragments": 291, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Sideroxydans", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.83", "min_intra_species_ani": "99.83", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.84", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016195965.1", "gtdb_species": "s__Gallionella sp016195965", "ani": 79.3938, "matched_fragments": 329, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "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_903858965.1", "gtdb_species": "s__Gallionella sp903858965", "ani": 79.3219, "matched_fragments": 285, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Gallionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.89", "min_intra_species_ani": "99.89", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016234685.1", "gtdb_species": "s__Ferriphaselus sp016234685", "ani": 79.2935, "matched_fragments": 330, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Ferriphaselus", "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_002787455.1", "gtdb_species": "s__Sideroxydans sp002787455", "ani": 79.2372, "matched_fragments": 174, "total_fragments": 857, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Gallionellaceae;g__Sideroxydans", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.23", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.78", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Ferrigenium", "kumadai" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }