{ "type": "genome", "identifier": "GCF_000154785.2", "organism": "Roseobacter litoralis Och 149", "title": "Roseobacter litoralis Och 149", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Moore Foundation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000154785.2", "bioproject": "PRJNA224116", "biosample": "SAMN02603624", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "391595", "species_taxid": "42443", "organism_name": "Roseobacter litoralis Och 149", "infraspecific_name": "strain=Och 149", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2011/06/28", "asm_name": "ASM15478v2", "asm_submitter": "Moore Foundation", "gbrs_paired_asm": "GCA_000154785.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/154/785/GCF_000154785.2_ASM15478v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4745450", "genome_size_ungapped": "4745450", "gc_percent": "57.000000", "replicon_count": "4", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000154785.2-RS_2024_05_01", "annotation_date": "2024-05-01", "total_gene_count": "4549", "protein_coding_gene_count": "4402", "non_coding_gene_count": "44", "pubmed_id": "21693016" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2011-06-28", "dateModified": "2011-06-28", "datePublished": "2011-06-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Roseobacter litoralis Och 149" ], "sample_taxid": [ "391595" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.341 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)": "4745450", "Number of Sequences": "4", "Longest Sequences (bp)": "4505211", "N50 (bp)": "4505211", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "57.2", "Number of CDSs": "4601", "Average Protein Length": "306.0", "Coding Ratio (%)": "89.0", "Number of rRNAs": "3", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Roseobacter litoralis", "strain": "strain=Och 149", "accession": "GCA_000154785.2", "taxid": 42443, "species_taxid": 42443, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1580, "total_fragments": 1580, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Roseobacter denitrificans", "strain": "strain=OCh 114", "accession": "GCA_000014045.1", "taxid": 2434, "species_taxid": 2434, "relation_to_type": "type", "validated": true, "ani": 88.5809, "matched_fragments": 1170, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseobacter denitrificans", "strain": "strain=DSM 7001", "accession": "GCA_900113215.1", "taxid": 2434, "species_taxid": 2434, "relation_to_type": "type", "validated": true, "ani": 88.5801, "matched_fragments": 1155, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseobacter cerasinus", "strain": "strain=AI77", "accession": "GCA_009811755.1", "taxid": 2602289, "species_taxid": 2602289, "relation_to_type": "type", "validated": true, "ani": 77.9022, "matched_fragments": 401, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseobacter ponti", "strain": "strain=DSM 106830", "accession": "GCA_012932215.1", "taxid": 1891787, "species_taxid": 1891787, "relation_to_type": "type", "validated": true, "ani": 77.738, "matched_fragments": 381, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudosulfitobacter pseudonitzschiae", "strain": "strain=H3", "accession": "GCA_000712315.1", "taxid": 1402135, "species_taxid": 1402135, "relation_to_type": "type", "validated": true, "ani": 77.657, "matched_fragments": 293, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudosulfitobacter pseudonitzschiae", "strain": "strain=DSM 26824", "accession": "GCA_900129395.1", "taxid": 1402135, "species_taxid": 1402135, "relation_to_type": "type", "validated": true, "ani": 77.6308, "matched_fragments": 295, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter sabulilitoris", "strain": "strain=HSMS-29", "accession": "GCA_005887615.1", "taxid": 2562655, "species_taxid": 2562655, "relation_to_type": "type", "validated": true, "ani": 77.6152, "matched_fragments": 354, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter indolifex", "strain": "strain=DSM 14862", "accession": "GCA_022788655.1", "taxid": 225422, "species_taxid": 225422, "relation_to_type": "type", "validated": true, "ani": 77.5711, "matched_fragments": 262, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter noctilucae", "strain": "strain=NB-68", "accession": "GCA_000622365.1", "taxid": 1342302, "species_taxid": 1342302, "relation_to_type": "type", "validated": true, "ani": 77.5128, "matched_fragments": 259, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter sediminilitoris", "strain": "strain=JBTF-M27", "accession": "GCA_010667575.1", "taxid": 2698830, "species_taxid": 2698830, "relation_to_type": "type", "validated": true, "ani": 77.3448, "matched_fragments": 278, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodonghicola xiamenensis", "strain": "strain=CGMCC 1.7081", "accession": "GCA_014653505.1", "taxid": 337702, "species_taxid": 337702, "relation_to_type": "type", "validated": true, "ani": 77.1457, "matched_fragments": 192, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodonghicola xiamenensis", "strain": "strain=DSM 18339", "accession": "GCA_000429365.1", "taxid": 337702, "species_taxid": 337702, "relation_to_type": "type", "validated": true, "ani": 77.0404, "matched_fragments": 195, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cribrihabitans marinus", "strain": "strain=CGMCC 1.13219", "accession": "GCA_014640375.1", "taxid": 1227549, "species_taxid": 1227549, "relation_to_type": "type", "validated": true, "ani": 76.9365, "matched_fragments": 224, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Palleronia sediminis", "strain": "strain=SS33", "accession": "GCA_004358695.1", "taxid": 2547833, "species_taxid": 2547833, "relation_to_type": "type", "validated": true, "ani": 76.8262, "matched_fragments": 121, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alexandriicola marinus", "strain": "strain=LZ-14", "accession": "GCA_004000435.1", "taxid": 2081710, "species_taxid": 2081710, "relation_to_type": "type", "validated": true, "ani": 76.7452, "matched_fragments": 153, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter fulva", "strain": "strain=con5", "accession": "GCA_018798885.1", "taxid": 2840474, "species_taxid": 2840474, "relation_to_type": "type", "validated": true, "ani": 76.6837, "matched_fragments": 177, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marivivens niveibacter", "strain": "strain=MCCC 1A06712", "accession": "GCA_002150005.2", "taxid": 1930667, "species_taxid": 1930667, "relation_to_type": "type", "validated": true, "ani": 76.6235, "matched_fragments": 94, "total_fragments": 1580, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000154785.2", "gtdb_species": "s__Roseobacter litoralis", "ani": 100.0, "matched_fragments": 1579, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Roseobacter", "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_000014045.1", "gtdb_species": "s__Roseobacter denitrificans", "ani": 88.5683, "matched_fragments": 1171, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Roseobacter", "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": 3, "status": "-" }, { "accession": "GCF_014337925.1", "gtdb_species": "s__Roseobacter litoralis_A", "ani": 78.5567, "matched_fragments": 499, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Roseobacter", "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_015644665.1", "gtdb_species": "s__Roseobacter sp015644665", "ani": 78.1889, "matched_fragments": 433, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Roseobacter", "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_012932215.1", "gtdb_species": "s__Roseobacter ponti", "ani": 77.7409, "matched_fragments": 382, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Roseobacter", "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_003335585.1", "gtdb_species": "s__Sulfitobacter sp003335585", "ani": 77.6928, "matched_fragments": 331, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sulfitobacter", "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_005887615.1", "gtdb_species": "s__Sulfitobacter_E sabulilitoris", "ani": 77.6032, "matched_fragments": 355, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sulfitobacter_E", "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_001650875.1", "gtdb_species": "s__Sulfitobacter sp001650875", "ani": 77.5469, "matched_fragments": 301, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sulfitobacter", "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_018200035.1", "gtdb_species": "s__Sulfitobacter sp018200035", "ani": 77.5426, "matched_fragments": 321, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sulfitobacter", "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_000622365.1", "gtdb_species": "s__Sulfitobacter noctilucae", "ani": 77.5006, "matched_fragments": 261, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sulfitobacter", "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_017854855.1", "gtdb_species": "s__Sulfitobacter sp017854855", "ani": 77.4816, "matched_fragments": 301, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sulfitobacter", "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_003352045.1", "gtdb_species": "s__JL08 sp003352045", "ani": 77.2284, "matched_fragments": 264, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__JL08", "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_000429365.1", "gtdb_species": "s__Pseudodonghicola xiamenensis", "ani": 77.0418, "matched_fragments": 196, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudodonghicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003116585.1", "gtdb_species": "s__Albibacillus kandeliae", "ani": 76.7893, "matched_fragments": 204, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Albibacillus", "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_003122205.1", "gtdb_species": "s__QEYE01 sp003122205", "ani": 76.4192, "matched_fragments": 144, "total_fragments": 1580, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__QEYE01", "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": -0.095, "cell_length": null, "doubling_h": null, "growth_tmp": 21.0, "optimum_tmp": null, "optimum_ph": null, "genome_size": 4745450.0, "gc_content": 57.225, "coding_genes": 4465.667, "rRNA16S_genes": 1.0, "tRNA_genes": 37.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Roseobacter", "litoralis", "Och", "149" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }