{ "type": "genome", "identifier": "GCF_003991355.1", "organism": "Pseudoflavitalea rhizosphaerae", "title": "Pseudoflavitalea rhizosphaerae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Hebei University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003991355.1", "bioproject": "PRJNA224116", "biosample": "SAMN10237497", "wgs_master": "RCSU00000000.1", "refseq_category": "reference genome", "taxid": "1884793", "species_taxid": "1884793", "organism_name": "Pseudoflavitalea rhizosphaerae", "infraspecific_name": "strain=KACC 18655", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/01/03", "asm_name": "ASM399135v1", "asm_submitter": "Hebei University", "gbrs_paired_asm": "GCA_003991355.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/991/355/GCF_003991355.1_ASM399135v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6708514", "genome_size_ungapped": "6708461", "gc_percent": "47.000000", "replicon_count": "0", "scaffold_count": "43", "contig_count": "43", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003991355.1-RS_2024_04_01", "annotation_date": "2024-04-01", "total_gene_count": "5311", "protein_coding_gene_count": "5248", "non_coding_gene_count": "50", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-01-03", "dateModified": "2019-01-03", "datePublished": "2019-01-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoflavitalea rhizosphaerae" ], "sample_taxid": [ "1884793" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Buyeo-gun, Chungcheongnam-do" ], "sample_host_location_id": [], "data_size": "1.904 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)": "6708514", "Number of Sequences": "43", "Longest Sequences (bp)": "806285", "N50 (bp)": "388019", "Gap Ratio (%)": "0.000999", "GCcontent (%)": "46.9", "Number of CDSs": "5259", "Average Protein Length": "381.6", "Coding Ratio (%)": "89.8", "Number of rRNAs": "2", "Number of tRNAs": "43", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudobacter ginsenosidimutans", "strain": "strain=Gsoil 221", "accession": "GCA_007970185.1", "taxid": 661488, "species_taxid": 661488, "relation_to_type": "type", "validated": true, "ani": 89.207, "matched_fragments": 1855, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudobacter ginsenosidimutans", "strain": "strain=DSM 18116", "accession": "GCA_004291315.1", "taxid": 661488, "species_taxid": 661488, "relation_to_type": "type", "validated": true, "ani": 89.1692, "matched_fragments": 1861, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraflavitalea soli", "strain": "strain=5GH32-13", "accession": "GCA_003555545.1", "taxid": 2315862, "species_taxid": 2315862, "relation_to_type": "type", "validated": true, "ani": 76.9699, "matched_fragments": 322, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraflavitalea devenefica", "strain": "strain=X16", "accession": "GCA_011759375.1", "taxid": 2716334, "species_taxid": 2716334, "relation_to_type": "type", "validated": true, "ani": 76.898, "matched_fragments": 316, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niastella caeni", "strain": "strain=HX-16-21", "accession": "GCA_004834005.1", "taxid": 2569763, "species_taxid": 2569763, "relation_to_type": "type", "validated": true, "ani": 76.684, "matched_fragments": 206, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niastella populi", "strain": "strain=CCTCC AB 208238", "accession": "GCA_002078015.1", "taxid": 550983, "species_taxid": 550983, "relation_to_type": "type", "validated": true, "ani": 76.5595, "matched_fragments": 252, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niastella yeongjuensis", "strain": "strain=DSM 17621", "accession": "GCA_002077935.1", "taxid": 354355, "species_taxid": 354355, "relation_to_type": "type", "validated": true, "ani": 76.4983, "matched_fragments": 228, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavihumibacter cheonanensis", "strain": "strain=WS16", "accession": "GCA_022352215.1", "taxid": 1442385, "species_taxid": 1442385, "relation_to_type": "type", "validated": true, "ani": 76.4749, "matched_fragments": 84, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niastella soli", "strain": "strain=MAH-29", "accession": "GCA_017742245.1", "taxid": 2821487, "species_taxid": 2821487, "relation_to_type": "type", "validated": true, "ani": 76.4287, "matched_fragments": 201, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niastella yeongjuensis", "strain": "strain=DSM 17621", "accession": "GCA_900110245.1", "taxid": 354355, "species_taxid": 354355, "relation_to_type": "type", "validated": true, "ani": 76.3903, "matched_fragments": 231, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Filimonas effusa", "strain": "strain=TTM-71", "accession": "GCA_004118675.1", "taxid": 2508721, "species_taxid": 2508721, "relation_to_type": "type", "validated": true, "ani": 76.2934, "matched_fragments": 90, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga alhagiae", "strain": "strain=T22", "accession": "GCA_003568665.1", "taxid": 2203219, "species_taxid": 2203219, "relation_to_type": "suspected-type", "validated": true, "ani": 76.0819, "matched_fragments": 91, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lacibacter luteus", "strain": "strain=TTM-7", "accession": "GCA_004118265.1", "taxid": 2508719, "species_taxid": 2508719, "relation_to_type": "type", "validated": true, "ani": 75.9127, "matched_fragments": 73, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga chungangae", "strain": "strain=MAH-28", "accession": "GCA_017742215.1", "taxid": 2821488, "species_taxid": 2821488, "relation_to_type": "type", "validated": true, "ani": 75.8366, "matched_fragments": 114, "total_fragments": 2217, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003991355.1", "gtdb_species": "s__Pseudobacter rhizosphaerae", "ani": 100.0, "matched_fragments": 2215, "total_fragments": 2217, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Pseudobacter", "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_007970185.1", "gtdb_species": "s__Pseudobacter ginsenosidimutans", "ani": 89.2065, "matched_fragments": 1854, "total_fragments": 2217, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Pseudobacter", "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_017744805.1", "gtdb_species": "s__Pseudobacter sp017744805", "ani": 82.4293, "matched_fragments": 1039, "total_fragments": 2217, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Pseudobacter", "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_012927185.1", "gtdb_species": "s__Pseudobacter sp012927185", "ani": 80.2268, "matched_fragments": 891, "total_fragments": 2217, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Pseudobacter", "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_017849455.1", "gtdb_species": "s__Pseudobacter sp017849455", "ani": 77.7562, "matched_fragments": 485, "total_fragments": 2217, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Pseudobacter", "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_003555545.1", "gtdb_species": "s__Paraflavitalea soli", "ani": 76.9616, "matched_fragments": 323, "total_fragments": 2217, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Paraflavitalea", "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_011759375.1", "gtdb_species": "s__Paraflavitalea devenefica", "ani": 76.913, "matched_fragments": 314, "total_fragments": 2217, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Paraflavitalea", "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_002078015.1", "gtdb_species": "s__Niastella populi", "ani": 76.5834, "matched_fragments": 249, "total_fragments": 2217, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Niastella", "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_900110245.1", "gtdb_species": "s__Niastella yeongjuensis", "ani": 76.3983, "matched_fragments": 230, "total_fragments": 2217, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Niastella", "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_001898405.1", "gtdb_species": "s__46-32 sp001898405", "ani": 76.2831, "matched_fragments": 155, "total_fragments": 2217, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__46-32", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.21", "min_intra_species_ani": "96.99", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.84", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_003568665.1", "gtdb_species": "s__Chitinophaga alhagiae", "ani": 76.0819, "matched_fragments": 91, "total_fragments": 2217, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Chitinophaga", "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": "-" } ] }, "_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": [ "Pseudoflavitalea", "rhizosphaerae" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }