{ "type": "genome", "identifier": "GCF_016458305.1", "organism": "Geomonas anaerohicana", "title": "Geomonas anaerohicana", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The University of Tokyo", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016458305.1", "bioproject": "PRJNA224116", "biosample": "SAMN17125851", "wgs_master": "JAEMHL000000000.1", "refseq_category": "reference genome", "taxid": "2798583", "species_taxid": "2798583", "organism_name": "Geomonas anaerohicana", "infraspecific_name": "strain=Red421", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/01/02", "asm_name": "ASM1645830v1", "asm_submitter": "The University of Tokyo", "gbrs_paired_asm": "GCA_016458305.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/458/305/GCF_016458305.1_ASM1645830v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5078966", "genome_size_ungapped": "5078966", "gc_percent": "61.500000", "replicon_count": "0", "scaffold_count": "48", "contig_count": "48", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016458305.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "4405", "protein_coding_gene_count": "4318", "non_coding_gene_count": "62", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-01-02", "dateModified": "2021-01-02", "datePublished": "2021-01-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Geomonas anaerohicana" ], "sample_taxid": [ "2798583" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "1.424 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)": "5078966", "Number of Sequences": "48", "Longest Sequences (bp)": "824110", "N50 (bp)": "413975", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "61.6", "Number of CDSs": "4369", "Average Protein Length": "337.8", "Coding Ratio (%)": "87.2", "Number of rRNAs": "2", "Number of tRNAs": "56", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Geomonas anaerohicana", "strain": "strain=Red421", "accession": "GCA_016458305.1", "taxid": 2798583, "species_taxid": 2798583, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1670, "total_fragments": 1671, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Geomonas paludis", "strain": "strain=Red736", "accession": "GCA_014193585.1", "taxid": 2740185, "species_taxid": 2740185, "relation_to_type": "type", "validated": true, "ani": 92.239, "matched_fragments": 1418, "total_fragments": 1671, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geomonas azotofigens", "strain": "strain=Red51", "accession": "GCA_018919395.1", "taxid": 2843196, "species_taxid": 2843196, "relation_to_type": "type", "validated": true, "ani": 89.1857, "matched_fragments": 1370, "total_fragments": 1671, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geomonas agri", "strain": "strain=RG53", "accession": "GCA_020179605.1", "taxid": 2873702, "species_taxid": 2873702, "relation_to_type": "type", "validated": true, "ani": 89.1456, "matched_fragments": 1271, "total_fragments": 1671, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geomonas propionica", "strain": "strain=Red259", "accession": "GCA_016458235.1", "taxid": 2798582, "species_taxid": 2798582, "relation_to_type": "type", "validated": true, "ani": 88.6227, "matched_fragments": 1326, "total_fragments": 1671, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016458305.1", "gtdb_species": "s__Geomonas anaerohicana", "ani": 100.0, "matched_fragments": 1670, "total_fragments": 1671, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "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_014193585.1", "gtdb_species": "s__Geomonas paludis", "ani": 92.239, "matched_fragments": 1418, "total_fragments": 1671, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "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_018919395.1", "gtdb_species": "s__Geomonas sp018919395", "ani": 89.1946, "matched_fragments": 1369, "total_fragments": 1671, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "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_018986915.1", "gtdb_species": "s__Geomonas sp018986915", "ani": 89.0855, "matched_fragments": 1344, "total_fragments": 1671, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "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_016458235.1", "gtdb_species": "s__Geomonas propionica", "ani": 88.6046, "matched_fragments": 1328, "total_fragments": 1671, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "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_018986935.1", "gtdb_species": "s__Geomonas sp018986935", "ani": 88.1704, "matched_fragments": 1289, "total_fragments": 1671, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.24", "min_intra_species_ani": "99.10", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_019203205.1", "gtdb_species": "s__Geomonas sp019203205", "ani": 88.1396, "matched_fragments": 1334, "total_fragments": 1671, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Geobacterales;f__Geobacteraceae;g__Geomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "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": [ "Geomonas", "anaerohicana" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }