{ "type": "genome", "identifier": "GCF_000585215.1", "organism": "Imhoffiella purpurea", "title": "Imhoffiella purpurea", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institute of Microbial Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000585215.1", "bioproject": "PRJNA224116", "biosample": "SAMN02951921", "wgs_master": "AONC00000000.1", "refseq_category": "reference genome", "taxid": "1249627", "species_taxid": "1249627", "organism_name": "Imhoffiella purpurea", "infraspecific_name": "strain=AK35", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/03/04", "asm_name": "Thiorhodococcus sp.", "asm_submitter": "Institute of Microbial Technology", "gbrs_paired_asm": "GCA_000585215.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/585/215/GCF_000585215.1_Thiorhodococcus_sp.", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4766665", "genome_size_ungapped": "4766665", "gc_percent": "65.000000", "replicon_count": "0", "scaffold_count": "151", "contig_count": "151", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000585215.1-RS_2024_12_13", "annotation_date": "2024-12-13", "total_gene_count": "4266", "protein_coding_gene_count": "4149", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-03-04", "dateModified": "2014-03-04", "datePublished": "2014-03-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Imhoffiella purpurea" ], "sample_taxid": [ "1249627" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.324 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)": "4766665", "Number of Sequences": "151", "Longest Sequences (bp)": "200196", "N50 (bp)": "84277", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.8", "Number of CDSs": "4118", "Average Protein Length": "334.3", "Coding Ratio (%)": "86.6", "Number of rRNAs": "3", "Number of tRNAs": "55", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Allochromatium tepidum", "strain": "strain=NZ", "accession": "GCA_018409545.1", "taxid": 553982, "species_taxid": 553982, "relation_to_type": "type", "validated": true, "ani": 80.9515, "matched_fragments": 589, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allochromatium vinosum", "strain": "strain=DSM 180", "accession": "GCA_000025485.1", "taxid": 1049, "species_taxid": 1049, "relation_to_type": "type", "validated": true, "ani": 80.8863, "matched_fragments": 613, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allochromatium humboldtianum", "strain": "strain=DSM 21881", "accession": "GCA_013385175.1", "taxid": 504901, "species_taxid": 504901, "relation_to_type": "type", "validated": true, "ani": 80.8171, "matched_fragments": 629, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiorhodococcus minor", "strain": "strain=DSM 11518", "accession": "GCA_010820565.1", "taxid": 57489, "species_taxid": 57489, "relation_to_type": "type", "validated": true, "ani": 80.5919, "matched_fragments": 719, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiocystis violacea", "strain": "strain=DSM 207", "accession": "GCA_016583575.1", "taxid": 13725, "species_taxid": 13725, "relation_to_type": "type", "validated": true, "ani": 80.4849, "matched_fragments": 686, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marichromatium gracile", "strain": "strain=DSM 203", "accession": "GCA_016583515.1", "taxid": 1048, "species_taxid": 1048, "relation_to_type": "type", "validated": true, "ani": 80.3695, "matched_fragments": 584, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marichromatium gracile", "strain": "strain=DSM 203", "accession": "GCA_004343155.1", "taxid": 1048, "species_taxid": 1048, "relation_to_type": "type", "validated": true, "ani": 80.3498, "matched_fragments": 602, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marichromatium purpuratum", "strain": "strain=984", "accession": "GCA_000224005.3", "taxid": 37487, "species_taxid": 37487, "relation_to_type": "type", "validated": true, "ani": 80.2868, "matched_fragments": 582, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiocystis minor", "strain": "strain=DSM 178", "accession": "GCA_016653465.1", "taxid": 61597, "species_taxid": 61597, "relation_to_type": "type", "validated": true, "ani": 79.5078, "matched_fragments": 562, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiocystis violascens", "strain": "strain=DSM 198", "accession": "GCA_000227745.3", "taxid": 73141, "species_taxid": 73141, "relation_to_type": "type", "validated": true, "ani": 79.3781, "matched_fragments": 621, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiocapsa roseopersicina", "strain": "strain=DSM 217", "accession": "GCA_900106925.1", "taxid": 1058, "species_taxid": 1058, "relation_to_type": "type", "validated": true, "ani": 79.2148, "matched_fragments": 496, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thiocapsa bogorovii", "strain": "strain=BBS", "accession": "GCA_021228795.1", "taxid": 521689, "species_taxid": 521689, "relation_to_type": "type", "validated": true, "ani": 78.8771, "matched_fragments": 476, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lalucatii", "strain": "strain=R1b54", "accession": "GCA_018398425.1", "taxid": 1424203, "species_taxid": 1424203, "relation_to_type": "type", "validated": true, "ani": 76.6226, "matched_fragments": 170, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas degradans", "strain": "strain=DSM 50238", "accession": "GCA_024448505.1", "taxid": 2968968, "species_taxid": 2968968, "relation_to_type": "type", "validated": true, "ani": 76.403, "matched_fragments": 120, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stutzerimonas degradans", "strain": "strain=FDAARGOS_876", "accession": "GCA_016028635.1", "taxid": 2968968, "species_taxid": 2968968, "relation_to_type": "suspected-type", "validated": true, "ani": 76.3792, "matched_fragments": 124, "total_fragments": 1523, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000585215.1", "gtdb_species": "s__Imhoffiella purpurea", "ani": 100.0, "matched_fragments": 1520, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Imhoffiella", "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_000224065.1", "gtdb_species": "s__Imhoffiella drewsii", "ani": 84.4647, "matched_fragments": 1090, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Imhoffiella", "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_018409545.1", "gtdb_species": "s__Allochromatium tepidum", "ani": 80.9358, "matched_fragments": 590, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Allochromatium", "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_000025485.1", "gtdb_species": "s__Allochromatium vinosum", "ani": 80.8889, "matched_fragments": 613, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Allochromatium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.59", "min_intra_species_ani": "97.59", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_013385175.1", "gtdb_species": "s__Allochromatium humboldtianum", "ani": 80.8205, "matched_fragments": 629, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Allochromatium", "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_010820565.1", "gtdb_species": "s__Thiorhodococcus minor", "ani": 80.5941, "matched_fragments": 720, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Thiorhodococcus", "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_016583575.1", "gtdb_species": "s__Thiocystis violacea", "ani": 80.4659, "matched_fragments": 689, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Thiocystis", "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_016583565.1", "gtdb_species": "s__Thiorhodococcus violacea_A", "ani": 80.4151, "matched_fragments": 723, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Thiorhodococcus", "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_004343155.1", "gtdb_species": "s__Marichromatium gracile", "ani": 80.3641, "matched_fragments": 601, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Marichromatium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.88", "min_intra_species_ani": "96.74", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_009720725.1", "gtdb_species": "s__Allochromatium palmeri", "ani": 80.1394, "matched_fragments": 598, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Allochromatium", "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_004342175.1", "gtdb_species": "s__Thiobaca trueperi", "ani": 79.7783, "matched_fragments": 583, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Thiobaca", "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_016653465.1", "gtdb_species": "s__Chromatium minus", "ani": 79.5361, "matched_fragments": 560, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Chromatium", "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_000227745.2", "gtdb_species": "s__Chromatium violascens", "ani": 79.3676, "matched_fragments": 622, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Chromatium", "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_903866365.1", "gtdb_species": "s__Chromatium sp903866365", "ani": 79.3068, "matched_fragments": 543, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Chromatium", "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_001499735.1", "gtdb_species": "s__Thiocapsa sp001499735", "ani": 79.3014, "matched_fragments": 503, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Thiocapsa", "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_900106925.1", "gtdb_species": "s__Thiocapsa roseopersicina", "ani": 79.2297, "matched_fragments": 495, "total_fragments": 1523, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Chromatiales;f__Chromatiaceae;g__Thiocapsa", "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": -0.302, "cell_length": -0.302, "doubling_h": null, "growth_tmp": 27.0, "optimum_tmp": 27.5, "optimum_ph": 7.1, "genome_size": 4766665.0, "gc_content": 64.8, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": null, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Imhoffiella", "purpurea" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }