{ "type": "genome", "identifier": "GCF_002870965.1", "organism": "Tsuneonella flava", "title": "Tsuneonella flava", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Xiamen University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002870965.1", "bioproject": "PRJNA224116", "biosample": "SAMN08049023", "wgs_master": "PHSO00000000.1", "refseq_category": "reference genome", "taxid": "2055955", "species_taxid": "2055955", "organism_name": "Tsuneonella flava", "infraspecific_name": "strain=MS1-4", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/01/10", "asm_name": "ASM287096v1", "asm_submitter": "Xiamen University", "gbrs_paired_asm": "GCA_002870965.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/870/965/GCF_002870965.1_ASM287096v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3275964", "genome_size_ungapped": "3275964", "gc_percent": "60.500000", "replicon_count": "0", "scaffold_count": "29", "contig_count": "29", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002870965.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "3094", "protein_coding_gene_count": "3007", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-01-10", "dateModified": "2018-01-10", "datePublished": "2018-01-10", "_annotation": { "sample_count": 1, "sample_organism": [ "Tsuneonella flava" ], "sample_taxid": [ "2055955" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Jiulong River, Fujian" ], "sample_host_location_id": [], "data_size": "0.920 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)": "3275964", "Number of Sequences": "29", "Longest Sequences (bp)": "693631", "N50 (bp)": "510722", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.5", "Number of CDSs": "3023", "Average Protein Length": "320.9", "Coding Ratio (%)": "88.8", "Number of rRNAs": "2", "Number of tRNAs": "46", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Tsuneonella flava", "strain": "strain=MS1-4", "accession": "GCA_002870965.1", "taxid": 2055955, "species_taxid": 2055955, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1083, "total_fragments": 1083, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Tsuneonella suprasediminis", "strain": "strain=Ery12", "accession": "GCA_003605755.1", "taxid": 2306996, "species_taxid": 2306996, "relation_to_type": "type", "validated": true, "ani": 92.4097, "matched_fragments": 838, "total_fragments": 1083, "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": 78.6593, "matched_fragments": 281, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter marensis", "strain": "strain=KCTC 22370", "accession": "GCA_001028625.1", "taxid": 543877, "species_taxid": 543877, "relation_to_type": "type", "validated": true, "ani": 78.5672, "matched_fragments": 355, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania aurantiaca", "strain": "strain=1NDH13", "accession": "GCA_019711375.1", "taxid": 2867233, "species_taxid": 2867233, "relation_to_type": "type", "validated": true, "ani": 78.531, "matched_fragments": 277, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter marensis", "strain": "strain=DSM 21428", "accession": "GCA_001461885.1", "taxid": 543877, "species_taxid": 543877, "relation_to_type": "type", "validated": true, "ani": 78.4764, "matched_fragments": 362, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter marinus", "strain": "strain=H32", "accession": "GCA_009827515.1", "taxid": 538382, "species_taxid": 538382, "relation_to_type": "type", "validated": true, "ani": 78.3829, "matched_fragments": 347, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania aerophila", "strain": "strain=GH25", "accession": "GCA_019711555.1", "taxid": 2867242, "species_taxid": 2867242, "relation_to_type": "type", "validated": true, "ani": 78.2327, "matched_fragments": 255, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania pacifica", "strain": "strain=NZ-96", "accession": "GCA_019857205.1", "taxid": 2860199, "species_taxid": 2860199, "relation_to_type": "type", "validated": true, "ani": 78.1748, "matched_fragments": 245, "total_fragments": 1083, "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": 78.118, "matched_fragments": 284, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tsuneonella aeria", "strain": "strain=100921-2", "accession": "GCA_009827495.1", "taxid": 1837929, "species_taxid": 1837929, "relation_to_type": "type", "validated": true, "ani": 78.0924, "matched_fragments": 312, "total_fragments": 1083, "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": 78.0172, "matched_fragments": 288, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tsuneonella rigui", "strain": "strain=KCTC 42620", "accession": "GCA_003958625.1", "taxid": 1708790, "species_taxid": 1708790, "relation_to_type": "type", "validated": true, "ani": 78.0144, "matched_fragments": 326, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania aestuarii", "strain": "strain=GH1", "accession": "GCA_019711535.1", "taxid": 2867241, "species_taxid": 2867241, "relation_to_type": "type", "validated": true, "ani": 77.9333, "matched_fragments": 236, "total_fragments": 1083, "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": 77.8877, "matched_fragments": 310, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tsuneonella deserti", "strain": "strain=CGMCC 1.15959", "accession": "GCA_014644315.1", "taxid": 2035528, "species_taxid": 2035528, "relation_to_type": "type", "validated": true, "ani": 77.8802, "matched_fragments": 294, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Croceibacterium xixiisoli", "strain": "strain=S36", "accession": "GCA_009827305.1", "taxid": 1476466, "species_taxid": 1476466, "relation_to_type": "type", "validated": true, "ani": 77.6979, "matched_fragments": 255, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allopontixanthobacter sediminis", "strain": "strain=KCTC 42453", "accession": "GCA_009828115.1", "taxid": 1689985, "species_taxid": 1689985, "relation_to_type": "type", "validated": true, "ani": 77.6345, "matched_fragments": 263, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002870965.1", "gtdb_species": "s__Tsuneonella flava", "ani": 100.0, "matched_fragments": 1083, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Tsuneonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.01", "min_intra_species_ani": "98.03", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_003605755.1", "gtdb_species": "s__Tsuneonella suprasediminis", "ani": 92.4097, "matched_fragments": 838, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Tsuneonella", "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_002269345.1", "gtdb_species": "s__Tsuneonella mangrovi", "ani": 79.4682, "matched_fragments": 443, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Tsuneonella", "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_001028625.1", "gtdb_species": "s__Pelagerythrobacter marensis", "ani": 78.567, "matched_fragments": 355, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pelagerythrobacter", "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_009827515.1", "gtdb_species": "s__Pelagerythrobacter marinus", "ani": 78.3829, "matched_fragments": 347, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pelagerythrobacter", "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_014763545.1", "gtdb_species": "s__JACXVD01 sp014763545", "ani": 78.3453, "matched_fragments": 380, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__JACXVD01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.92", "min_intra_species_ani": "99.92", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009827495.1", "gtdb_species": "s__Tsuneonella aeria", "ani": 78.1066, "matched_fragments": 312, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Tsuneonella", "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_900143235.1", "gtdb_species": "s__Erythrobacter sanguineus", "ani": 78.1017, "matched_fragments": 286, "total_fragments": 1083, "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": "GCF_003958625.1", "gtdb_species": "s__Tsuneonella rigui", "ani": 78.0115, "matched_fragments": 327, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Tsuneonella", "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_002377695.1", "gtdb_species": "s__Alteriqipengyuania sp002377695", "ani": 77.9869, "matched_fragments": 251, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Alteriqipengyuania", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_005884405.1", "gtdb_species": "s__Qipengyuania marisflavi", "ani": 77.9678, "matched_fragments": 309, "total_fragments": 1083, "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_004135625.1", "gtdb_species": "s__Pelagerythrobacter rhizovicinus", "ani": 77.8907, "matched_fragments": 311, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pelagerythrobacter", "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_001698205.1", "gtdb_species": "s__Tsuneonella dongtanensis", "ani": 77.8254, "matched_fragments": 302, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Tsuneonella", "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_009827305.1", "gtdb_species": "s__Croceibacterium xixiisoli", "ani": 77.7068, "matched_fragments": 255, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Croceibacterium", "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_011054555.1", "gtdb_species": "s__Erythrobacter sp011054555", "ani": 77.6835, "matched_fragments": 197, "total_fragments": 1083, "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": 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": [ "Tsuneonella", "flava" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }