{ "type": "genome", "identifier": "GCF_013402815.2", "organism": "Natrinema halophilum", "title": "Natrinema halophilum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Jiangsu University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013402815.2", "bioproject": "PRJNA224116", "biosample": "SAMN15423737", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1699371", "species_taxid": "1699371", "organism_name": "Natrinema halophilum", "infraspecific_name": "strain=YPL8", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/10/19", "asm_name": "ASM1340281v2", "asm_submitter": "Jiangsu University", "gbrs_paired_asm": "GCA_013402815.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/402/815/GCF_013402815.2_ASM1340281v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "archaea", "genome_size": "4842193", "genome_size_ungapped": "4842193", "gc_percent": "60.000000", "replicon_count": "3", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013402815.2-RS_2024_05_06", "annotation_date": "2024-05-06", "total_gene_count": "4702", "protein_coding_gene_count": "4492", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-10-19", "dateModified": "2021-10-19", "datePublished": "2021-10-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Natrinema halophilum" ], "sample_taxid": [ "1699371" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Yunnan" ], "sample_host_location_id": [], "data_size": "1.352 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4842193", "Number of Sequences": "3", "Longest Sequences (bp)": "4359796", "N50 (bp)": "4359796", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.1", "Number of CDSs": "4579", "Average Protein Length": "282.3", "Coding Ratio (%)": "80.1", "Number of rRNAs": "6", "Number of tRNAs": "49", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Natrinema salaciae", "strain": "strain=DSM 25055", "accession": "GCA_900110865.1", "taxid": 1186196, "species_taxid": 1186196, "relation_to_type": "type", "validated": true, "ani": 81.1648, "matched_fragments": 884, "total_fragments": 1612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Natrinema amylolyticum", "strain": "strain=LT61", "accession": "GCA_020515625.1", "taxid": 2878679, "species_taxid": 2878679, "relation_to_type": "type", "validated": true, "ani": 80.9734, "matched_fragments": 841, "total_fragments": 1612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Natrinema altunense", "strain": "strain=AJ2", "accession": "GCA_000731985.1", "taxid": 222984, "species_taxid": 222984, "relation_to_type": "type", "validated": true, "ani": 80.8191, "matched_fragments": 729, "total_fragments": 1612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Natrinema altunense", "strain": "strain=JCM 12890", "accession": "GCA_000337155.1", "taxid": 222984, "species_taxid": 222984, "relation_to_type": "type", "validated": true, "ani": 80.8033, "matched_fragments": 727, "total_fragments": 1612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Haloterrigena limicola", "strain": "strain=JCM 13563", "accession": "GCA_000337475.1", "taxid": 370323, "species_taxid": 370323, "relation_to_type": "type", "validated": true, "ani": 80.6015, "matched_fragments": 645, "total_fragments": 1612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halopiger salifodinae", "strain": "strain=CGMCC 1.12284", "accession": "GCA_900110455.1", "taxid": 1202768, "species_taxid": 1202768, "relation_to_type": "type", "validated": true, "ani": 80.5531, "matched_fragments": 776, "total_fragments": 1612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halopiger salifodinae", "strain": "strain=KCY07-B2", "accession": "GCA_000784335.1", "taxid": 1202768, "species_taxid": 1202768, "relation_to_type": "type", "validated": true, "ani": 80.5418, "matched_fragments": 762, "total_fragments": 1612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Natrinema pallidum", "strain": "strain=DSM 3751", "accession": "GCA_000337615.1", "taxid": 69527, "species_taxid": 69527, "relation_to_type": "type", "validated": true, "ani": 80.5168, "matched_fragments": 715, "total_fragments": 1612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Natrinema gari", "strain": "strain=JCM 14663", "accession": "GCA_000337175.1", "taxid": 419186, "species_taxid": 419186, "relation_to_type": "type", "validated": true, "ani": 80.4618, "matched_fragments": 711, "total_fragments": 1612, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013402815.1", "gtdb_species": "s__Natrinema sp013402815", "ani": 100.0, "matched_fragments": 1453, "total_fragments": 1612, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema", "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_005576615.1", "gtdb_species": "s__Natrinema versiforme_A", "ani": 81.1684, "matched_fragments": 805, "total_fragments": 1612, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema", "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_900110865.1", "gtdb_species": "s__Natrinema salaciae", "ani": 81.1623, "matched_fragments": 884, "total_fragments": 1612, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema", "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_000731985.1", "gtdb_species": "s__Natrinema altunense", "ani": 80.8158, "matched_fragments": 729, "total_fragments": 1612, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.98", "min_intra_species_ani": "98.00", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000337475.1", "gtdb_species": "s__Natrinema limicola", "ani": 80.5576, "matched_fragments": 650, "total_fragments": 1612, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema", "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_900110455.1", "gtdb_species": "s__Natrinema salifodinae", "ani": 80.5325, "matched_fragments": 779, "total_fragments": 1612, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000337615.1", "gtdb_species": "s__Natrinema pallidum", "ani": 80.4944, "matched_fragments": 717, "total_fragments": 1612, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.94", "min_intra_species_ani": "98.94", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000337175.1", "gtdb_species": "s__Natrinema gari", "ani": 80.4661, "matched_fragments": 711, "total_fragments": 1612, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.50", "min_intra_species_ani": "98.45", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900111485.1", "gtdb_species": "s__Natrinema hispanicum_A", "ani": 80.3383, "matched_fragments": 670, "total_fragments": 1612, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Natrialbaceae;g__Natrinema", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.65", "min_intra_species_ani": "99.65", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.161, "cell_length": 0.261, "doubling_h": 0.271, "growth_tmp": 40.0, "optimum_tmp": 37.5, "optimum_ph": 7.05, "genome_size": 4182870.888, "gc_content": 63.96, "coding_genes": 4112.0, "rRNA16S_genes": 3.0, "tRNA_genes": 48.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.6, "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": [ "Natrinema", "halophilum" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }