{ "type": "genome", "identifier": "GCF_007830695.1", "organism": "Altererythrobacter ishigakiensis", "title": "Altererythrobacter ishigakiensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_007830695.1", "bioproject": "PRJNA224116", "biosample": "SAMN02982999", "wgs_master": "VLLK00000000.1", "refseq_category": "na", "taxid": "476157", "species_taxid": "476157", "organism_name": "Altererythrobacter ishigakiensis", "infraspecific_name": "strain=ATCC BAA-2084", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/08/02", "asm_name": "ASM783069v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_007830695.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/007/830/695/GCF_007830695.1_ASM783069v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2672716", "genome_size_ungapped": "2672716", "gc_percent": "57.000000", "replicon_count": "0", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_007830695.1-RS_2024_05_17", "annotation_date": "2024-05-17", "total_gene_count": "2592", "protein_coding_gene_count": "2539", "non_coding_gene_count": "48", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-08-02", "dateModified": "2019-08-02", "datePublished": "2019-08-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Altererythrobacter ishigakiensis" ], "sample_taxid": [ "476157" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan:Okinawa, Japan" ], "sample_host_location_id": [], "data_size": "0.759 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)": "2672716", "Number of Sequences": "4", "Longest Sequences (bp)": "2067912", "N50 (bp)": "2067912", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "56.9", "Number of CDSs": "2560", "Average Protein Length": "319.1", "Coding Ratio (%)": "91.7", "Number of rRNAs": "3", "Number of tRNAs": "44", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Altererythrobacter ishigakiensis", "strain": "strain=ATCC BAA-2084", "accession": "GCA_007830695.1", "taxid": 476157, "species_taxid": 476157, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 888, "total_fragments": 889, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Altererythrobacter ishigakiensis", "strain": "strain=NBRC 107699", "accession": "GCA_001663155.1", "taxid": 476157, "species_taxid": 476157, "relation_to_type": "type", "validated": true, "ani": 99.9953, "matched_fragments": 889, "total_fragments": 889, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Altererythrobacter lutimaris", "strain": "strain=JGD-16", "accession": "GCA_013371495.1", "taxid": 2743979, "species_taxid": 2743979, "relation_to_type": "type", "validated": true, "ani": 78.1148, "matched_fragments": 287, "total_fragments": 889, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter rubeus", "strain": "strain=KMU-140", "accession": "GCA_014705715.1", "taxid": 2760803, "species_taxid": 2760803, "relation_to_type": "type", "validated": true, "ani": 77.9381, "matched_fragments": 226, "total_fragments": 889, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania xiapuensis", "strain": "strain=1NDW9", "accession": "GCA_019711395.1", "taxid": 2867236, "species_taxid": 2867236, "relation_to_type": "type", "validated": true, "ani": 77.9321, "matched_fragments": 221, "total_fragments": 889, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania vesicularis", "strain": "strain=1NDH10", "accession": "GCA_019711415.1", "taxid": 2867232, "species_taxid": 2867232, "relation_to_type": "type", "validated": true, "ani": 77.9093, "matched_fragments": 208, "total_fragments": 889, "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": 77.896, "matched_fragments": 207, "total_fragments": 889, "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": 77.8615, "matched_fragments": 224, "total_fragments": 889, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Parerythrobacter jejuensis", "strain": "strain=JCM 16677", "accession": "GCA_009827995.1", "taxid": 795812, "species_taxid": 795812, "relation_to_type": "type", "validated": true, "ani": 77.8518, "matched_fragments": 214, "total_fragments": 889, "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": 77.8046, "matched_fragments": 222, "total_fragments": 889, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter litoralis", "strain": "strain=DSM 8509", "accession": "GCA_001719165.1", "taxid": 39960, "species_taxid": 39960, "relation_to_type": "type", "validated": true, "ani": 77.5518, "matched_fragments": 213, "total_fragments": 889, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter litoralis", "strain": "strain=DSM 8509", "accession": "GCA_000714795.1", "taxid": 39960, "species_taxid": 39960, "relation_to_type": "type", "validated": true, "ani": 77.5042, "matched_fragments": 210, "total_fragments": 889, "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": 77.4605, "matched_fragments": 160, "total_fragments": 889, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter insulae", "strain": "strain=JBTF-M21", "accession": "GCA_007004095.1", "taxid": 2584124, "species_taxid": 2584124, "relation_to_type": "type", "validated": true, "ani": 77.4534, "matched_fragments": 168, "total_fragments": 889, "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": 77.438, "matched_fragments": 211, "total_fragments": 889, "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": 77.4059, "matched_fragments": 166, "total_fragments": 889, "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": 77.3637, "matched_fragments": 209, "total_fragments": 889, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingopyxis soli", "strain": "strain=BL03", "accession": "GCA_018682675.1", "taxid": 592051, "species_taxid": 592051, "relation_to_type": "type", "validated": true, "ani": 77.0754, "matched_fragments": 91, "total_fragments": 889, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001663155.1", "gtdb_species": "s__Erythrobacter ishigakiensis", "ani": 99.9953, "matched_fragments": 889, "total_fragments": 889, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.03", "min_intra_species_ani": "96.25", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCA_003149575.1", "gtdb_species": "s__Erythrobacter sp003149575", "ani": 81.5454, "matched_fragments": 515, "total_fragments": 889, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.16", "min_intra_species_ani": "98.16", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_013002295.1", "gtdb_species": "s__Erythrobacter sp013002295", "ani": 81.4913, "matched_fragments": 393, "total_fragments": 889, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Erythrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.14", "min_intra_species_ani": "98.90", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.82", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_011047315.1", "gtdb_species": "s__Erythrobacter sp011047315", "ani": 78.958, "matched_fragments": 393, "total_fragments": 889, "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_001515985.1", "gtdb_species": "s__Erythrobacter sp001515985", "ani": 78.5109, "matched_fragments": 253, "total_fragments": 889, "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_900177715.1", "gtdb_species": "s__Erythrobacter xiamenensis", "ani": 78.2738, "matched_fragments": 313, "total_fragments": 889, "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_001281485.1", "gtdb_species": "s__Erythrobacter epoxidivorans", "ani": 78.2654, "matched_fragments": 238, "total_fragments": 889, "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_013371495.1", "gtdb_species": "s__Erythrobacter sp013371495", "ani": 78.12, "matched_fragments": 286, "total_fragments": 889, "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_000152865.1", "gtdb_species": "s__Erythrobacter sp000152865", "ani": 77.9856, "matched_fragments": 249, "total_fragments": 889, "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_016764075.1", "gtdb_species": "s__Qipengyuania sp016764075", "ani": 77.9014, "matched_fragments": 165, "total_fragments": 889, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "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_001542875.1", "gtdb_species": "s__Erythrobacter sp001542875", "ani": 77.7846, "matched_fragments": 175, "total_fragments": 889, "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": 77.6628, "matched_fragments": 208, "total_fragments": 889, "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_001296025.1", "gtdb_species": "s__Erythrobacter sp001296025", "ani": 77.6609, "matched_fragments": 212, "total_fragments": 889, "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_001687545.1", "gtdb_species": "s__Paraurantiacibacter namhicola", "ani": 77.5416, "matched_fragments": 172, "total_fragments": 889, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Paraurantiacibacter", "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_009828055.1", "gtdb_species": "s__Erythrobacter ramosus", "ani": 77.438, "matched_fragments": 211, "total_fragments": 889, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.188, "cell_length": 0.169, "doubling_h": null, "growth_tmp": 29.5, "optimum_tmp": 28.35, "optimum_ph": 7.083, "genome_size": 2673558.667, "gc_content": 56.9, "coding_genes": 2533.0, "rRNA16S_genes": 1.0, "tRNA_genes": 42.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.2, "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": [ "Altererythrobacter", "ishigakiensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }