{ "type": "genome", "identifier": "GCF_003633775.1", "organism": "Kushneria sinocarnis", "title": "Kushneria sinocarnis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003633775.1", "bioproject": "PRJNA224116", "biosample": "SAMN08769587", "wgs_master": "RBIN00000000.1", "refseq_category": "reference genome", "taxid": "595502", "species_taxid": "595502", "organism_name": "Kushneria sinocarnis", "infraspecific_name": "strain=DSM 23229", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/10/11", "asm_name": "ASM363377v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_003633775.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/633/775/GCF_003633775.1_ASM363377v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3510707", "genome_size_ungapped": "3510707", "gc_percent": "64.000000", "replicon_count": "0", "scaffold_count": "18", "contig_count": "18", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003633775.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "3289", "protein_coding_gene_count": "3200", "non_coding_gene_count": "65", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-10-11", "dateModified": "2018-10-11", "datePublished": "2018-10-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Kushneria sinocarnis" ], "sample_taxid": [ "595502" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Hubei Province, Wuhan" ], "sample_host_location_id": [], "data_size": "0.970 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)": "3510707", "Number of Sequences": "18", "Longest Sequences (bp)": "566358", "N50 (bp)": "426635", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.1", "Number of CDSs": "3256", "Average Protein Length": "320.7", "Coding Ratio (%)": "89.2", "Number of rRNAs": "3", "Number of tRNAs": "60", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Kushneria sinocarnis", "strain": "strain=DSM 23229", "accession": "GCA_003633775.1", "taxid": 595502, "species_taxid": 595502, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1162, "total_fragments": 1162, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Kushneria phosphatilytica", "strain": "strain=YCWA18", "accession": "GCA_008247605.1", "taxid": 657387, "species_taxid": 657387, "relation_to_type": "type", "validated": true, "ani": 83.2641, "matched_fragments": 877, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kushneria phosphatilytica", "strain": "strain=YCWA18", "accession": "GCA_001854625.1", "taxid": 657387, "species_taxid": 657387, "relation_to_type": "type", "validated": true, "ani": 83.2534, "matched_fragments": 888, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kushneria aurantia", "strain": "strain=DSM 21353", "accession": "GCA_000382245.1", "taxid": 504092, "species_taxid": 504092, "relation_to_type": "type", "validated": true, "ani": 79.252, "matched_fragments": 430, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kushneria indalinina", "strain": "strain=DSM 14324", "accession": "GCA_003385845.1", "taxid": 184067, "species_taxid": 184067, "relation_to_type": "type", "validated": true, "ani": 78.7427, "matched_fragments": 481, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kushneria avicenniae", "strain": "strain=DSM 23439", "accession": "GCA_900112585.1", "taxid": 402385, "species_taxid": 402385, "relation_to_type": "type", "validated": true, "ani": 78.6703, "matched_fragments": 451, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas ethanolica", "strain": "strain=MCCC 1A11081", "accession": "GCA_021404305.1", "taxid": 2733486, "species_taxid": 2733486, "relation_to_type": "type", "validated": true, "ani": 78.4662, "matched_fragments": 327, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas heilongjiangensis", "strain": "strain=9-2", "accession": "GCA_003202165.1", "taxid": 1387883, "species_taxid": 1387883, "relation_to_type": "type", "validated": true, "ani": 78.4655, "matched_fragments": 351, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas campisalis", "strain": "strain=A4", "accession": "GCA_022341425.1", "taxid": 74661, "species_taxid": 74661, "relation_to_type": "type", "validated": true, "ani": 78.3538, "matched_fragments": 341, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas sulfidivorans", "strain": "strain=MCCC 1A13718", "accession": "GCA_017868935.1", "taxid": 2733488, "species_taxid": 2733488, "relation_to_type": "type", "validated": true, "ani": 78.3301, "matched_fragments": 317, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas tianxiuensis", "strain": "strain=BC-M4-5", "accession": "GCA_009834345.1", "taxid": 2497861, "species_taxid": 2497861, "relation_to_type": "type", "validated": true, "ani": 78.3221, "matched_fragments": 303, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas sulfidoxydans", "strain": "strain=MCCC 1A11059", "accession": "GCA_017868775.1", "taxid": 2733484, "species_taxid": 2733484, "relation_to_type": "type", "validated": true, "ani": 78.3178, "matched_fragments": 335, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromohalobacter salexigens", "strain": "strain=DSM 3043", "accession": "GCA_000055785.1", "taxid": 158080, "species_taxid": 158080, "relation_to_type": "type", "validated": true, "ani": 78.3007, "matched_fragments": 324, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas kenyensis", "strain": "strain=DSM 17331", "accession": "GCA_022341445.1", "taxid": 321266, "species_taxid": 321266, "relation_to_type": "type", "validated": true, "ani": 78.2899, "matched_fragments": 308, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas kenyensis", "strain": "strain=DSM 17331", "accession": "GCA_013697085.1", "taxid": 321266, "species_taxid": 321266, "relation_to_type": "type", "validated": true, "ani": 78.2683, "matched_fragments": 305, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas saccharevitans", "strain": "strain=CGMCC 1.6493", "accession": "GCA_900116405.1", "taxid": 416872, "species_taxid": 416872, "relation_to_type": "type", "validated": true, "ani": 78.2609, "matched_fragments": 332, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomonas lysinitropha", "strain": "strain=3(2)", "accession": "GCA_902500215.1", "taxid": 2607506, "species_taxid": 2607506, "relation_to_type": "type", "validated": true, "ani": 78.2092, "matched_fragments": 294, "total_fragments": 1162, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003633775.1", "gtdb_species": "s__Kushneria sinocarnis", "ani": 100.0, "matched_fragments": 1162, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Kushneria", "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_008247605.1", "gtdb_species": "s__Kushneria phosphatilytica", "ani": 83.2641, "matched_fragments": 877, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Kushneria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000382245.1", "gtdb_species": "s__Kushneria aurantia", "ani": 79.2414, "matched_fragments": 431, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Kushneria", "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_001577635.1", "gtdb_species": "s__Halomonas_C sp001577635", "ani": 79.074, "matched_fragments": 394, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas_C", "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_010993675.1", "gtdb_species": "s__Halomonas_C sp010993675", "ani": 79.0001, "matched_fragments": 402, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas_C", "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_000265245.1", "gtdb_species": "s__Halomonas smyrnensis", "ani": 78.9811, "matched_fragments": 361, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.45", "min_intra_species_ani": "98.45", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004117855.1", "gtdb_species": "s__Halomonas_C coralii", "ani": 78.9324, "matched_fragments": 415, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas_C", "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_009363755.1", "gtdb_species": "s__Halomonas sp009363755", "ani": 78.8305, "matched_fragments": 341, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "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_003385845.1", "gtdb_species": "s__Kushneria indalinina", "ani": 78.7535, "matched_fragments": 481, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Kushneria", "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_900112585.1", "gtdb_species": "s__Kushneria avicenniae", "ani": 78.6571, "matched_fragments": 453, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Kushneria", "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_002879645.1", "gtdb_species": "s__Halomonas heilongjiangensis", "ani": 78.5425, "matched_fragments": 341, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014652795.1", "gtdb_species": "s__Kushneria pakistanensis", "ani": 78.5232, "matched_fragments": 408, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Kushneria", "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_003966155.1", "gtdb_species": "s__Halomonas nitroreducens", "ani": 78.5226, "matched_fragments": 330, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "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_002549795.1", "gtdb_species": "s__Halomonas beimenensis", "ani": 78.5053, "matched_fragments": 333, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "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_014192275.1", "gtdb_species": "s__Halomonas stenophila", "ani": 78.4959, "matched_fragments": 358, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "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_013697085.1", "gtdb_species": "s__Halomonas kenyensis", "ani": 78.2183, "matched_fragments": 309, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "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_000196875.2", "gtdb_species": "s__Halomonas elongata", "ani": 78.1757, "matched_fragments": 331, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.75", "min_intra_species_ani": "98.56", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_003553625.1", "gtdb_species": "s__Halomonas sp003553625", "ani": 78.1035, "matched_fragments": 244, "total_fragments": 1162, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Halomonadaceae;g__Halomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.75", "min_intra_species_ani": "98.58", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.80", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.302, "cell_length": 0.146, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": 7.0, "genome_size": 3510707.0, "gc_content": 59.05, "coding_genes": 3190.0, "rRNA16S_genes": 4.0, "tRNA_genes": 66.0, "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": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Kushneria", "sinocarnis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }