{ "type": "genome", "identifier": "GCF_014199395.1", "organism": "Yoonia ponticola", "title": "Yoonia ponticola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014199395.1", "bioproject": "PRJNA224116", "biosample": "SAMN12025202", "wgs_master": "JACIJM000000000.1", "refseq_category": "reference genome", "taxid": "1524255", "species_taxid": "1524255", "organism_name": "Yoonia ponticola", "infraspecific_name": "strain=DSM 101064", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/14", "asm_name": "ASM1419939v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014199395.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/199/395/GCF_014199395.1_ASM1419939v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3729572", "genome_size_ungapped": "3729475", "gc_percent": "55.500000", "replicon_count": "0", "scaffold_count": "30", "contig_count": "30", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014199395.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "3673", "protein_coding_gene_count": "3593", "non_coding_gene_count": "47", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-14", "dateModified": "2020-08-14", "datePublished": "2020-08-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Yoonia ponticola" ], "sample_taxid": [ "1524255" ], "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": "1.058 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)": "3729572", "Number of Sequences": "30", "Longest Sequences (bp)": "572295", "N50 (bp)": "412558", "Gap Ratio (%)": "0.002601", "GCcontent (%)": "55.5", "Number of CDSs": "3672", "Average Protein Length": "305.6", "Coding Ratio (%)": "90.3", "Number of rRNAs": "3", "Number of tRNAs": "41", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Loktanella ponticola", "strain": "strain=DSM 101064", "accession": "GCA_014199395.1", "taxid": 1524255, "species_taxid": 1524255, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1224, "total_fragments": 1228, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sulfitobacter pontiacus", "strain": "strain=DSM 10014", "accession": "GCA_900106935.1", "taxid": 60137, "species_taxid": 60137, "relation_to_type": "type", "validated": true, "ani": 80.5804, "matched_fragments": 198, "total_fragments": 1228, "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": 77.8074, "matched_fragments": 193, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassobius mediterraneus", "strain": "strain=CECT 5383", "accession": "GCA_001458435.1", "taxid": 340021, "species_taxid": 340021, "relation_to_type": "type", "validated": true, "ani": 77.6719, "matched_fragments": 148, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassobius mediterraneus", "strain": "strain=DSM 16398", "accession": "GCA_900156595.1", "taxid": 340021, "species_taxid": 340021, "relation_to_type": "type", "validated": true, "ani": 77.6513, "matched_fragments": 144, "total_fragments": 1228, "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": 77.6327, "matched_fragments": 229, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter maritimus", "strain": "strain=S0837", "accession": "GCA_013346665.1", "taxid": 2741719, "species_taxid": 2741719, "relation_to_type": "type", "validated": true, "ani": 77.6118, "matched_fragments": 151, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Celeribacter persicus", "strain": "strain=DSM 100434", "accession": "GCA_003050785.1", "taxid": 1651082, "species_taxid": 1651082, "relation_to_type": "type", "validated": true, "ani": 77.5898, "matched_fragments": 124, "total_fragments": 1228, "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": 77.5343, "matched_fragments": 283, "total_fragments": 1228, "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": 77.2525, "matched_fragments": 186, "total_fragments": 1228, "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": 77.2402, "matched_fragments": 187, "total_fragments": 1228, "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": 77.2015, "matched_fragments": 167, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Octadecabacter temperatus", "strain": "strain=SB1", "accession": "GCA_001187845.1", "taxid": 1458307, "species_taxid": 1458307, "relation_to_type": "type", "validated": true, "ani": 77.1543, "matched_fragments": 183, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Octadecabacter temperatus", "strain": "strain=DSM 26878", "accession": "GCA_900142425.1", "taxid": 1458307, "species_taxid": 1458307, "relation_to_type": "type", "validated": true, "ani": 77.1339, "matched_fragments": 187, "total_fragments": 1228, "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": 77.1151, "matched_fragments": 199, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marivita geojedonensis", "strain": "strain=DPG-138", "accession": "GCA_002115805.1", "taxid": 1123756, "species_taxid": 1123756, "relation_to_type": "type", "validated": true, "ani": 77.1031, "matched_fragments": 148, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marivita geojedonensis", "strain": "strain=DSM 29432", "accession": "GCA_003002975.1", "taxid": 1123756, "species_taxid": 1123756, "relation_to_type": "type", "validated": true, "ani": 77.1023, "matched_fragments": 149, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudophaeobacter flagellatus", "strain": "strain=MA21411-1", "accession": "GCA_021228235.1", "taxid": 2899119, "species_taxid": 2899119, "relation_to_type": "type", "validated": true, "ani": 77.0432, "matched_fragments": 89, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Loktanella salsilacus", "strain": "strain=DSM 16199", "accession": "GCA_900114485.1", "taxid": 195913, "species_taxid": 195913, "relation_to_type": "type", "validated": true, "ani": 77.0146, "matched_fragments": 257, "total_fragments": 1228, "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": 76.9865, "matched_fragments": 227, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ascidiaceihabitans donghaensis", "strain": "strain=CECT 8599", "accession": "GCA_900302465.1", "taxid": 1510460, "species_taxid": 1510460, "relation_to_type": "type", "validated": true, "ani": 76.919, "matched_fragments": 142, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter marinus", "strain": "strain=DSM 23422", "accession": "GCA_900116285.1", "taxid": 394264, "species_taxid": 394264, "relation_to_type": "type", "validated": true, "ani": 76.8187, "matched_fragments": 160, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zongyanglinia huanghaiensis", "strain": "strain=CY05", "accession": "GCA_009753675.1", "taxid": 2682100, "species_taxid": 2682100, "relation_to_type": "type", "validated": true, "ani": 76.7082, "matched_fragments": 99, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shimia gijangensis", "strain": "strain=DSM 100564", "accession": "GCA_900142085.1", "taxid": 1470563, "species_taxid": 1470563, "relation_to_type": "type", "validated": true, "ani": 76.6522, "matched_fragments": 102, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Loktanella atrilutea", "strain": "strain=DSM 29326", "accession": "GCA_900128995.1", "taxid": 366533, "species_taxid": 366533, "relation_to_type": "type", "validated": true, "ani": 76.2372, "matched_fragments": 145, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cereibacter azotoformans", "strain": "strain=KA25", "accession": "GCA_003050905.1", "taxid": 43057, "species_taxid": 43057, "relation_to_type": "type", "validated": true, "ani": 75.8825, "matched_fragments": 56, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseibacterium elongatum", "strain": "strain=DFL-43", "accession": "GCA_000590925.1", "taxid": 159346, "species_taxid": 159346, "relation_to_type": "type", "validated": true, "ani": 75.8784, "matched_fragments": 71, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus sulfuroxidans", "strain": "strain=CGMCC 1.5364", "accession": "GCA_007830335.1", "taxid": 384678, "species_taxid": 384678, "relation_to_type": "type", "validated": true, "ani": 75.8737, "matched_fragments": 63, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cereibacter ovatus", "strain": "strain=JA234", "accession": "GCA_900207575.1", "taxid": 439529, "species_taxid": 439529, "relation_to_type": "type", "validated": true, "ani": 75.8169, "matched_fragments": 72, "total_fragments": 1228, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014199395.1", "gtdb_species": "s__Yoonia ponticola", "ani": 100.0, "matched_fragments": 1224, "total_fragments": 1228, "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": "conclusive" }, { "accession": "GCF_003201935.1", "gtdb_species": "s__Yoonia sp003201935", "ani": 77.8966, "matched_fragments": 270, "total_fragments": 1228, "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": 77.8624, "matched_fragments": 251, "total_fragments": 1228, "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": 77.8598, "matched_fragments": 254, "total_fragments": 1228, "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": "-" }, { "accession": "GCF_002933395.1", "gtdb_species": "s__Yoonia maritima_A", "ani": 77.7651, "matched_fragments": 224, "total_fragments": 1228, "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_003003285.1", "gtdb_species": "s__Yoonia maritima", "ani": 77.6919, "matched_fragments": 228, "total_fragments": 1228, "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_001458435.1", "gtdb_species": "s__Thalassobius mediterraneus", "ani": 77.6719, "matched_fragments": 148, "total_fragments": 1228, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Thalassobius", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_905182645.1", "gtdb_species": "s__Yoonia sp905182645", "ani": 77.55, "matched_fragments": 238, "total_fragments": 1228, "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": 77.5319, "matched_fragments": 283, "total_fragments": 1228, "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_003058085.1", "gtdb_species": "s__Yoonia sediminilitoris", "ani": 77.2383, "matched_fragments": 187, "total_fragments": 1228, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Yoonia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900302505.1", "gtdb_species": "s__Pseudoprimorskyibacter insulae", "ani": 77.2014, "matched_fragments": 167, "total_fragments": 1228, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudoprimorskyibacter", "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_900109295.1", "gtdb_species": "s__Cognatiyoonia koreensis", "ani": 77.1151, "matched_fragments": 199, "total_fragments": 1228, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Cognatiyoonia", "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_002115805.1", "gtdb_species": "s__Marivita geojedonensis", "ani": 77.0852, "matched_fragments": 149, "total_fragments": 1228, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Marivita", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003663885.1", "gtdb_species": "s__Litoreibacter meonggei", "ani": 76.9436, "matched_fragments": 183, "total_fragments": 1228, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Litoreibacter", "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_002210105.1", "gtdb_species": "s__Pseudooceanicola sp002210105", "ani": 76.9137, "matched_fragments": 116, "total_fragments": 1228, "gtdb_taxonomy": 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