{ "type": "genome", "identifier": "GCF_900156505.1", "organism": "Yoonia rosea", "title": "Yoonia rosea", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900156505.1", "bioproject": "PRJNA224116", "biosample": "SAMN05421665", "wgs_master": "FTPR00000000.1", "refseq_category": "reference genome", "taxid": "287098", "species_taxid": "287098", "organism_name": "Yoonia rosea", "infraspecific_name": "strain=DSM 29591", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/01/20", "asm_name": "IMG-taxon 2681812930 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900156505.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/156/505/GCF_900156505.1_IMG-taxon_2681812930_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3514278", "genome_size_ungapped": "3514278", "gc_percent": "57.500000", "replicon_count": "0", "scaffold_count": "5", "contig_count": "5", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900156505.1-RS_2024_09_23", "annotation_date": "2024-09-23", "total_gene_count": "3549", "protein_coding_gene_count": "3484", "non_coding_gene_count": "48", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-01-20", "dateModified": "2017-01-20", "datePublished": "2017-01-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Yoonia rosea" ], "sample_taxid": [ "287098" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.991 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)": "3514278", "Number of Sequences": "5", "Longest Sequences (bp)": "2258576", "N50 (bp)": "2258576", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "57.7", "Number of CDSs": "3524", "Average Protein Length": "304.6", "Coding Ratio (%)": "91.6", "Number of rRNAs": "3", "Number of tRNAs": "42", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Yoonia rosea", "strain": "strain=DSM 29591", "accession": "GCA_900156505.1", "taxid": 287098, "species_taxid": 287098, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1167, "total_fragments": 1168, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Yoonia maricola", "strain": "strain=DSM 29128", "accession": "GCA_002797915.1", "taxid": 420999, "species_taxid": 420999, "relation_to_type": "type", "validated": true, "ani": 79.5778, "matched_fragments": 610, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yoonia vestfoldensis", "strain": "strain=DSM 16212", "accession": "GCA_000382265.1", "taxid": 245188, "species_taxid": 245188, "relation_to_type": "type", "validated": true, "ani": 78.5015, "matched_fragments": 484, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yoonia tamlensis", "strain": "strain=DSM 26879", "accession": "GCA_900115105.1", "taxid": 390270, "species_taxid": 390270, "relation_to_type": "type", "validated": true, "ani": 78.4948, "matched_fragments": 395, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yoonia sediminilitoris", "strain": "strain=DSM 29955", "accession": "GCA_003058085.1", "taxid": 1286148, "species_taxid": 1286148, "relation_to_type": "type", "validated": true, "ani": 78.3952, "matched_fragments": 384, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yoonia sediminilitoris", "strain": "strain=CECT 8284", "accession": "GCA_003337495.1", "taxid": 1286148, "species_taxid": 1286148, "relation_to_type": "type", "validated": true, "ani": 78.3885, "matched_fragments": 385, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yoonia litorea", "strain": "strain=DSM 29433", "accession": "GCA_900114675.1", "taxid": 1123755, "species_taxid": 1123755, "relation_to_type": "type", "validated": true, "ani": 78.3581, "matched_fragments": 407, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yoonia maritima", "strain": "strain=DSM 101533", "accession": "GCA_003003285.1", "taxid": 1435347, "species_taxid": 1435347, "relation_to_type": "type", "validated": true, "ani": 78.224, "matched_fragments": 292, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cognatiyoonia koreensis", "strain": "strain=DSM 17925", "accession": "GCA_900109295.1", "taxid": 364200, "species_taxid": 364200, "relation_to_type": "type", "validated": true, "ani": 77.5586, "matched_fragments": 300, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoprimorskyibacter insulae", "strain": "strain=CECT 8871", "accession": "GCA_900302505.1", "taxid": 1695997, "species_taxid": 1695997, "relation_to_type": "type", "validated": true, "ani": 77.0441, "matched_fragments": 200, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leisingera caerulea", "strain": "strain=DSM 24564", "accession": "GCA_000473325.1", "taxid": 506591, "species_taxid": 506591, "relation_to_type": "type", "validated": true, "ani": 76.9483, "matched_fragments": 195, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marivivens aquimaris", "strain": "strain=GSB7", "accession": "GCA_015220045.1", "taxid": 2774876, "species_taxid": 2774876, "relation_to_type": "type", "validated": true, "ani": 76.7666, "matched_fragments": 168, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Leisingera daeponensis", "strain": "strain=DSM 23529", "accession": "GCA_000473145.1", "taxid": 405746, "species_taxid": 405746, "relation_to_type": "type", "validated": true, "ani": 76.7036, "matched_fragments": 200, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus tibetensis", "strain": "strain=CGMCC 1.8925", "accession": "GCA_900102505.1", "taxid": 336292, "species_taxid": 336292, "relation_to_type": "type", "validated": true, "ani": 76.7025, "matched_fragments": 101, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagivirga sediminicola", "strain": "strain=BH-SD19", "accession": "GCA_003072125.1", "taxid": 2170575, "species_taxid": 2170575, "relation_to_type": "type", "validated": true, "ani": 76.6422, "matched_fragments": 196, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola aestuarii", "strain": "strain=E2-1", "accession": "GCA_010614805.1", "taxid": 2697319, "species_taxid": 2697319, "relation_to_type": "type", "validated": true, "ani": 76.5546, "matched_fragments": 159, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salipiger marinus", "strain": "strain=DSM 26424", "accession": "GCA_900100085.1", "taxid": 555512, "species_taxid": 555512, "relation_to_type": "type", "validated": true, "ani": 76.5324, "matched_fragments": 215, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhabdonatronobacter sediminivivens", "strain": "strain=IM2376", "accession": "GCA_013415485.1", "taxid": 2743469, "species_taxid": 2743469, "relation_to_type": "type", "validated": true, "ani": 76.2353, "matched_fragments": 136, "total_fragments": 1168, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900156505.1", "gtdb_species": "s__Yoonia rosea", "ani": 100.0, "matched_fragments": 1167, "total_fragments": 1168, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Yoonia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.70", "min_intra_species_ani": "96.70", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_003201935.1", "gtdb_species": "s__Yoonia sp003201935", "ani": 91.6422, "matched_fragments": 970, "total_fragments": 1168, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Yoonia", "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_001419985.1", "gtdb_species": "s__Yoonia sp001419985", "ani": 89.199, "matched_fragments": 983, "total_fragments": 1168, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Yoonia", "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_000169435.1", "gtdb_species": "s__Yoonia sp000169435", "ani": 79.6965, "matched_fragments": 618, "total_fragments": 1168, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Yoonia", "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_900143545.1", "gtdb_species": "s__Yoonia sp900143545", "ani": 79.5808, "matched_fragments": 520, "total_fragments": 1168, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Yoonia", "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_002797915.1", "gtdb_species": "s__Yoonia maricola", "ani": 79.5778, "matched_fragments": 610, "total_fragments": 1168, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Yoonia", "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_900115105.1", "gtdb_species": "s__Yoonia tamlensis", "ani": 78.5014, "matched_fragments": 396, "total_fragments": 1168, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Yoonia", "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_000382265.1", "gtdb_species": "s__Yoonia vestfoldensis", "ani": 78.4931, "matched_fragments": 485, "total_fragments": 1168, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Yoonia", "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_003318235.1", "gtdb_species": "s__Yoonia sp003318235", "ani": 77.7717, "matched_fragments": 266, "total_fragments": 1168, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Yoonia", "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_002378665.1", "gtdb_species": "s__Yoonia sp002378665", "ani": 77.3403, "matched_fragments": 216, "total_fragments": 1168, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Yoonia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.59", "min_intra_species_ani": "99.15", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.87", "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": [ "Yoonia", "rosea" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }