{ "type": "genome", "identifier": "GCF_021249405.1", "organism": "Halobacterium zhouii", "title": "Halobacterium zhouii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Jiangsu University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_021249405.1", "bioproject": "PRJNA224116", "biosample": "SAMN23798265", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2902624", "species_taxid": "2902624", "organism_name": "Halobacterium zhouii", "infraspecific_name": "strain=XZYJT26", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/12/21", "asm_name": "ASM2124940v1", "asm_submitter": "Jiangsu University", "gbrs_paired_asm": "GCA_021249405.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/021/249/405/GCF_021249405.1_ASM2124940v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "archaea", "genome_size": "2828879", "genome_size_ungapped": "2828879", "gc_percent": "66.000000", "replicon_count": "4", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_021249405.1-RS_2024_06_10", "annotation_date": "2024-06-10", "total_gene_count": "2928", "protein_coding_gene_count": "2863", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-12-21", "dateModified": "2021-12-21", "datePublished": "2021-12-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Halobacterium zhouii" ], "sample_taxid": [ "2902624" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Tibet" ], "sample_host_location_id": [], "data_size": "0.770 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2828879", "Number of Sequences": "4", "Longest Sequences (bp)": "2509167", "N50 (bp)": "2509167", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.2", "Number of CDSs": "2890", "Average Protein Length": "284.8", "Coding Ratio (%)": "87.3", "Number of rRNAs": "3", "Number of tRNAs": "48", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Halobacterium litoreum", "strain": "strain=ZS-54-S2", "accession": "GCA_021233415.1", "taxid": 2039234, "species_taxid": 2039234, "relation_to_type": "type", "validated": true, "ani": 82.7648, "matched_fragments": 620, "total_fragments": 941, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halobacterium noricense", "strain": "strain=JCM 15102", "accession": "GCA_021233435.1", "taxid": 223182, "species_taxid": 223182, "relation_to_type": "type", "validated": true, "ani": 82.037, "matched_fragments": 551, "total_fragments": 941, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halobacterium hubeiense", "strain": "strain=JI20-1", "accession": "GCA_001488575.1", "taxid": 1407499, "species_taxid": 1407499, "relation_to_type": "type", "validated": true, "ani": 82.0203, "matched_fragments": 559, "total_fragments": 941, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halobacterium bonnevillei", "strain": "strain=PCN9", "accession": "GCA_009831555.1", "taxid": 2692200, "species_taxid": 2692200, "relation_to_type": "type", "validated": true, "ani": 81.6042, "matched_fragments": 501, "total_fragments": 941, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halobacterium jilantaiense", "strain": "strain=CGMCC 1.5337", "accession": "GCA_900110535.1", "taxid": 355548, "species_taxid": 355548, "relation_to_type": "type", "validated": true, "ani": 81.3757, "matched_fragments": 572, "total_fragments": 941, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halobacterium salinarum", "strain": "strain=DSM 3754", "accession": "GCA_008124605.1", "taxid": 2242, "species_taxid": 2242, "relation_to_type": "type", "validated": true, "ani": 79.8785, "matched_fragments": 406, "total_fragments": 941, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halobacterium salinarum", "strain": "strain=91-R6", "accession": "GCA_004799605.1", "taxid": 2242, "species_taxid": 2242, "relation_to_type": "type", "validated": true, "ani": 79.8377, "matched_fragments": 406, "total_fragments": 941, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halobaculum magnesiiphilum", "strain": "strain=NBRC 109044", "accession": "GCA_019823105.1", "taxid": 1017351, "species_taxid": 1017351, "relation_to_type": "type", "validated": true, "ani": 77.9313, "matched_fragments": 329, "total_fragments": 941, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000230955.2", "gtdb_species": "s__Halobacterium sp000230955", "ani": 82.4077, "matched_fragments": 598, "total_fragments": 941, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halobacteriaceae;g__Halobacterium", "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_009741975.1", "gtdb_species": "s__Halobacterium sp009741975", "ani": 82.3717, "matched_fragments": 497, "total_fragments": 941, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halobacteriaceae;g__Halobacterium", "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_011734195.1", "gtdb_species": "s__Halobacterium sp011734195", "ani": 82.2789, "matched_fragments": 577, "total_fragments": 941, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halobacteriaceae;g__Halobacterium", "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_001488575.1", "gtdb_species": "s__Halobacterium hubeiense", "ani": 82.0122, "matched_fragments": 561, "total_fragments": 941, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halobacteriaceae;g__Halobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", "min_intra_species_ani": "99.49", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_001485535.1", "gtdb_species": "s__Halobacterium sp001485535", "ani": 81.8925, "matched_fragments": 538, "total_fragments": 941, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halobacteriaceae;g__Halobacterium", "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_009831555.1", "gtdb_species": "s__Halobacterium sp009831555", "ani": 81.5628, "matched_fragments": 504, "total_fragments": 941, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halobacteriaceae;g__Halobacterium", "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_900110535.1", "gtdb_species": "s__Halobacterium jilantaiense", "ani": 81.3516, "matched_fragments": 574, "total_fragments": 941, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Halobacteriaceae;g__Halobacterium", "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_008124605.1", "gtdb_species": "s__Halobacterium salinarum", "ani": 79.8857, "matched_fragments": 405, "total_fragments": 941, "gtdb_taxonomy": 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"d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloferacaceae;g__Halobaculum", "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_008831545.1", "gtdb_species": "s__Halorussus sp008831545", "ani": 77.2885, "matched_fragments": 319, "total_fragments": 941, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haladaptataceae;g__Halorussus", "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": -0.302, "cell_length": 0.0, "doubling_h": 0.938, "growth_tmp": 39.016, "optimum_tmp": 45.292, "optimum_ph": 7.25, "genome_size": 2902821.046, "gc_content": 63.993, "coding_genes": 2916.433, "rRNA16S_genes": 1.2, "tRNA_genes": 45.333, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 1.0, "facultative_respiration": 0.5, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.5, "mesophilic_range_tmp": 0.0, "thermophilic_range_tmp": 1.0, "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": [ "Halobacterium", "zhouii" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }