{ "type": "genome", "identifier": "GCF_002155695.1", "organism": "Erythrobacter tepidarius", "title": "Erythrobacter tepidarius", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Second Institute of Oceanography, State Oceanic Administration", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002155695.1", "bioproject": "PRJNA224116", "biosample": "SAMN06251563", "wgs_master": "MUYJ00000000.1", "refseq_category": "reference genome", "taxid": "60454", "species_taxid": "60454", "organism_name": "Erythrobacter tepidarius", "infraspecific_name": "strain=DSM 10594", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/05/22", "asm_name": "ASM215569v1", "asm_submitter": "Second Institute of Oceanography, State Oceanic Administration", "gbrs_paired_asm": "GCA_002155695.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/155/695/GCF_002155695.1_ASM215569v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3216818", "genome_size_ungapped": "3216818", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "32", "contig_count": "32", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002155695.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "3137", "protein_coding_gene_count": "3053", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-05-22", "dateModified": "2017-05-22", "datePublished": "2017-05-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Erythrobacter tepidarius" ], "sample_taxid": [ "60454" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan: Shidzuoka Prefecture" ], "sample_host_location_id": [], "data_size": "0.883 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)": "3216818", "Number of Sequences": "32", "Longest Sequences (bp)": "372825", "N50 (bp)": "211628", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.9", "Number of CDSs": "3073", "Average Protein Length": "316.7", "Coding Ratio (%)": "90.8", "Number of rRNAs": "3", "Number of tRNAs": "44", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Erythrobacter tepidarius", "strain": "strain=DSM 10594", "accession": "GCA_002155695.1", "taxid": 60454, "species_taxid": 60454, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1048, "total_fragments": 1057, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Erythrobacter colymbi", "strain": "strain=JCM 18338", "accession": "GCA_002155685.1", "taxid": 1161202, "species_taxid": 1161202, "relation_to_type": "type", "validated": true, "ani": 84.0441, "matched_fragments": 777, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter dokdonensis", "strain": "strain=DSM 17193", "accession": "GCA_002155305.1", "taxid": 328225, "species_taxid": 328225, "relation_to_type": "type", "validated": true, "ani": 83.7971, "matched_fragments": 759, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter dokdonensis", "strain": "strain=DSW-74", "accession": "GCA_001677335.1", "taxid": 328225, "species_taxid": 328225, "relation_to_type": "type", "validated": true, "ani": 83.7136, "matched_fragments": 767, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter donghaensis", "strain": "strain=DSM 16220", "accession": "GCA_002155425.1", "taxid": 267135, "species_taxid": 267135, "relation_to_type": "suspected-type", "validated": true, "ani": 83.605, "matched_fragments": 781, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter sanguineus", "strain": "strain=JCM 20691", "accession": "GCA_002155655.1", "taxid": 198312, "species_taxid": 198312, "relation_to_type": "type", "validated": true, "ani": 82.8069, "matched_fragments": 734, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter sanguineus", "strain": "strain=DSM 11032", "accession": "GCA_900143235.1", "taxid": 198312, "species_taxid": 198312, "relation_to_type": "type", "validated": true, "ani": 82.7832, "matched_fragments": 730, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter ramosus", "strain": "strain=JCM 10282", "accession": "GCA_009828055.1", "taxid": 35811, "species_taxid": 35811, "relation_to_type": "type", "validated": true, "ani": 82.6695, "matched_fragments": 725, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter ramosus", "strain": "strain=DSM 8510", "accession": "GCA_014195675.1", "taxid": 35811, "species_taxid": 35811, "relation_to_type": "type", "validated": true, "ani": 82.637, "matched_fragments": 729, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania proteolytica", "strain": "strain=6B39", "accession": "GCA_019711565.1", "taxid": 2867239, "species_taxid": 2867239, "relation_to_type": "type", "validated": true, "ani": 79.2589, "matched_fragments": 458, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter rhizovicinus", "strain": "strain=AY-3R", "accession": "GCA_004135625.1", "taxid": 2268576, "species_taxid": 2268576, "relation_to_type": "type", "validated": true, "ani": 78.7577, "matched_fragments": 401, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter aerophilus", "strain": "strain=Ery1", "accession": "GCA_003581645.1", "taxid": 2306995, "species_taxid": 2306995, "relation_to_type": "type", "validated": true, "ani": 78.7529, "matched_fragments": 410, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania sphaerica", "strain": "strain=GH29", "accession": "GCA_019711595.1", "taxid": 2867243, "species_taxid": 2867243, "relation_to_type": "type", "validated": true, "ani": 78.6663, "matched_fragments": 411, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania qiaonensis", "strain": "strain=6D47A", "accession": "GCA_019711515.1", "taxid": 2867240, "species_taxid": 2867240, "relation_to_type": "type", "validated": true, "ani": 78.4318, "matched_fragments": 350, "total_fragments": 1057, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002155695.1", "gtdb_species": "s__Erythrobacter tepidarius", "ani": 100.0, "matched_fragments": 1050, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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": "GCA_011054555.1", "gtdb_species": "s__Erythrobacter sp011054555", "ani": 84.8663, "matched_fragments": 589, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_903934325.1", "gtdb_species": "s__Erythrobacter sp903934325", "ani": 84.7178, "matched_fragments": 734, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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": "-" }, { "accession": "GCA_016125555.1", "gtdb_species": "s__Erythrobacter sp016125555", "ani": 84.3058, "matched_fragments": 750, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_002215495.1", "gtdb_species": "s__Erythrobacter sp002215495", "ani": 84.1924, "matched_fragments": 799, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_002155685.1", "gtdb_species": "s__Erythrobacter colymbi", "ani": 84.0444, "matched_fragments": 777, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_006542605.1", "gtdb_species": "s__Erythrobacter sp006542605", "ani": 83.7776, "matched_fragments": 757, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_001677335.1", "gtdb_species": "s__Erythrobacter dokdonensis", "ani": 83.7174, "matched_fragments": 766, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_001557115.1", "gtdb_species": "s__Erythrobacter sp001557115", "ani": 83.6102, "matched_fragments": 700, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.84", "min_intra_species_ani": "99.84", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002155425.1", "gtdb_species": "s__Erythrobacter donghaensis", "ani": 83.5798, "matched_fragments": 784, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_013911835.1", "gtdb_species": "s__Erythrobacter sp013911835", "ani": 83.4671, "matched_fragments": 489, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_002952215.1", "gtdb_species": "s__Erythrobacter sp002952215", "ani": 83.2821, "matched_fragments": 774, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_000744895.1", "gtdb_species": "s__Erythrobacter sp000744895", "ani": 83.0299, "matched_fragments": 754, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_009905735.1", "gtdb_species": "s__Erythrobacter sp009905735", "ani": 82.8511, "matched_fragments": 737, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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_002482865.1", "gtdb_species": "s__Erythrobacter sp002482865", "ani": 81.9034, "matched_fragments": 512, "total_fragments": 1057, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "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": -0.343, "cell_length": 0.193, "doubling_h": null, "growth_tmp": 28.375, "optimum_tmp": 28.388, "optimum_ph": 7.464, "genome_size": 3027217.49, "gc_content": 62.412, "coding_genes": 2905.766, "rRNA16S_genes": 1.25, "tRNA_genes": 45.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.125, "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": [ "Erythrobacter", "tepidarius" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }