{ "type": "genome", "identifier": "GCF_900110245.1", "organism": "Niastella yeongjuensis", "title": "Niastella yeongjuensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900110245.1", "bioproject": "PRJNA224116", "biosample": "SAMN05660816", "wgs_master": "FOCZ00000000.1", "refseq_category": "reference genome", "taxid": "354355", "species_taxid": "354355", "organism_name": "Niastella yeongjuensis", "infraspecific_name": "strain=DSM 17621", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/31", "asm_name": "IMG-taxon 2599185237 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900110245.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/110/245/GCF_900110245.1_IMG-taxon_2599185237_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8546563", "genome_size_ungapped": "8546538", "gc_percent": "44.500000", "replicon_count": "0", "scaffold_count": "39", "contig_count": "39", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900110245.1-RS_2024_04_26", "annotation_date": "2024-04-26", "total_gene_count": "6834", "protein_coding_gene_count": "6756", "non_coding_gene_count": "64", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-31", "dateModified": "2016-10-31", "datePublished": "2016-10-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Niastella yeongjuensis DSM 17621" ], "sample_taxid": [ "1122606" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea:Yeongju region" ], "sample_host_location_id": [], "data_size": "2.424 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)": "8546563", "Number of Sequences": "39", "Longest Sequences (bp)": "1020739", "N50 (bp)": "590434", "Gap Ratio (%)": "0.000293", "GCcontent (%)": "44.5", "Number of CDSs": "6749", "Average Protein Length": "368.4", "Coding Ratio (%)": "87.3", "Number of rRNAs": "5", "Number of tRNAs": "64", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Niastella yeongjuensis", "strain": "strain=DSM 17621", "accession": "GCA_900110245.1", "taxid": 354355, "species_taxid": 354355, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2830, "total_fragments": 2830, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Niastella yeongjuensis", "strain": "strain=DSM 17621", "accession": "GCA_002077935.1", "taxid": 354355, "species_taxid": 354355, "relation_to_type": "type", "validated": true, "ani": 99.9857, "matched_fragments": 2794, "total_fragments": 2830, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Niastella koreensis", "strain": "strain=DSM 17620", "accession": "GCA_002077985.1", "taxid": 354356, "species_taxid": 354356, "relation_to_type": "type", "validated": true, "ani": 85.0411, "matched_fragments": 1863, "total_fragments": 2830, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niastella koreensis", "strain": "strain=GR20-10", "accession": "GCA_000246855.1", "taxid": 354356, "species_taxid": 354356, "relation_to_type": "type", "validated": true, "ani": 84.9598, "matched_fragments": 1896, "total_fragments": 2830, "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": 84.3508, "matched_fragments": 1939, "total_fragments": 2830, "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": 76.1018, "matched_fragments": 81, "total_fragments": 2830, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niabella pedocola", "strain": "strain=JCM 31011", "accession": "GCA_021044425.1", "taxid": 1752077, "species_taxid": 1752077, "relation_to_type": "type", "validated": true, "ani": 75.9449, "matched_fragments": 82, "total_fragments": 2830, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinophaga hostae", "strain": "strain=2R12", "accession": "GCA_018224885.1", "taxid": 2831022, "species_taxid": 2831022, "relation_to_type": "type", "validated": true, "ani": 75.6581, "matched_fragments": 96, "total_fragments": 2830, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Panacibacter microcysteis", "strain": "strain=DH6", "accession": "GCA_015831355.1", "taxid": 2793269, "species_taxid": 2793269, "relation_to_type": "type", "validated": true, "ani": 75.6551, "matched_fragments": 76, "total_fragments": 2830, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Niabella hibiscisoli", "strain": "strain=THG-DN5.5", "accession": "GCA_022512515.1", "taxid": 1825928, "species_taxid": 1825928, "relation_to_type": "type", "validated": true, "ani": 75.5561, "matched_fragments": 69, "total_fragments": 2830, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900110245.1", "gtdb_species": "s__Niastella yeongjuensis", "ani": 100.0, "matched_fragments": 2830, "total_fragments": 2830, "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": "conclusive" }, { "accession": "GCF_000246855.1", "gtdb_species": "s__Niastella koreensis", "ani": 84.9579, "matched_fragments": 1895, "total_fragments": 2830, "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", 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"N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_004341975.1", "gtdb_species": "s__Niastella sp004341975", "ani": 80.7951, "matched_fragments": 1392, "total_fragments": 2830, "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_004834005.1", "gtdb_species": "s__Niastella caeni", "ani": 80.6571, "matched_fragments": 1274, "total_fragments": 2830, "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_017356035.1", "gtdb_species": "s__Niastella sp017356035", "ani": 80.6088, "matched_fragments": 1237, "total_fragments": 2830, "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_002078015.1", "gtdb_species": "s__Niastella populi", "ani": 80.4708, "matched_fragments": 1300, "total_fragments": 2830, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.398, "cell_length": 1.0, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 31.5, "optimum_ph": 7.0, "genome_size": 8546563.0, "gc_content": 44.95, "coding_genes": 7160.333, "rRNA16S_genes": 3.0, "tRNA_genes": 55.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 1.0, "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": [ "Niastella", "yeongjuensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }