{ "type": "genome", "identifier": "GCA_000496235.1", "organism": "uncultured archaeon A07HR60", "title": "uncultured archaeon A07HR60", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of California, San Diego, Scripps Institution of Oceanography", "publication": [ {} ], "properties": { "assembly_accession": "GCA_000496235.1", "bioproject": "PRJNA224121", "biosample": "SAMN02347633", "wgs_master": "AYLL00000000.1", "refseq_category": "na", "taxid": "1412874", "species_taxid": "1412874", "organism_name": "uncultured archaeon A07HR60", "infraspecific_name": "", "isolate": "", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/11/08", "asm_name": "A07HR60_111512_select", "submitter": "University of California, San Diego, Scripps Institution of Oceanography", "gbrs_paired_asm": "GCF_000496235.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/000/496/235/GCA_000496235.1_A07HR60_111512_select", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-11-08", "dateModified": "2013-11-08", "datePublished": "2013-11-08", "_annotation": { "sample_count": 1, "sample_organism": [ "hypersaline lake metagenome" ], "sample_taxid": [ "904678" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Australia: Victoria" ], "sample_host_location_id": [], "data_size": "0.784 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 74.65, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2876249", "Number of Sequences": "14", "Longest Sequences (bp)": "544013", "N50 (bp)": "304570", "Gap Ratio (%)": "4.115847", "GCcontent (%)": "59.1", "Number of CDSs": "2584", "Average Protein Length": "271.4", "Coding Ratio (%)": "73.1", "Number of rRNAs": "3", "Number of tRNAs": "36", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Halorubrum tebenquichense", "strain": "strain=DSM 14210", "accession": "GCA_000337415.1", "taxid": 119434, "species_taxid": 119434, "relation_to_type": "type", "validated": true, "ani": 76.3989, "matched_fragments": 83, "total_fragments": 952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halalkaliarchaeum desulfuricum", "strain": "strain=AArc-Sl", "accession": "GCA_002952775.1", "taxid": 2055893, "species_taxid": 2055893, "relation_to_type": "type", "validated": true, "ani": 76.3307, "matched_fragments": 90, "total_fragments": 952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomicrobium katesii", "strain": "strain=DSM 19301", "accession": "GCA_000379085.1", "taxid": 437163, "species_taxid": 437163, "relation_to_type": "type", "validated": true, "ani": 76.0567, "matched_fragments": 78, "total_fragments": 952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halomicrobium mukohataei", "strain": "strain=DSM 12286", "accession": "GCA_000023965.1", "taxid": 57705, "species_taxid": 57705, "relation_to_type": "type", "validated": true, "ani": 76.0198, "matched_fragments": 75, "total_fragments": 952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halogranum amylolyticum", "strain": "strain=CGMCC 1.10121", "accession": "GCA_900110465.1", "taxid": 660520, "species_taxid": 660520, "relation_to_type": "type", "validated": true, "ani": 75.9731, "matched_fragments": 97, "total_fragments": 952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halolamina rubra", "strain": "strain=CBA1107", "accession": "GCA_000739555.1", "taxid": 1380430, "species_taxid": 1380430, "relation_to_type": "type", "validated": true, "ani": 75.925, "matched_fragments": 71, "total_fragments": 952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halogranum salarium", "strain": "strain=B-1", "accession": "GCA_000283335.1", "taxid": 693851, "species_taxid": 693851, "relation_to_type": "type", "validated": true, "ani": 75.81, "matched_fragments": 88, "total_fragments": 952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Haladaptatus paucihalophilus", "strain": "strain=DX253", "accession": "GCA_000376445.1", "taxid": 367189, "species_taxid": 367189, "relation_to_type": "type", "validated": true, "ani": 75.781, "matched_fragments": 60, "total_fragments": 952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Haladaptatus paucihalophilus", "strain": "strain=DX253", "accession": "GCA_000187225.2", "taxid": 367189, "species_taxid": 367189, "relation_to_type": "type", "validated": true, "ani": 75.6311, "matched_fragments": 60, "total_fragments": 952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Haladaptatus paucihalophilus", "strain": "strain=DX253", "accession": "GCA_900142335.1", "taxid": 367189, "species_taxid": 367189, "relation_to_type": "type", "validated": true, "ani": 75.6097, "matched_fragments": 62, "total_fragments": 952, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halogranum rubrum", "strain": "strain=CGMCC 1.7738", "accession": "GCA_900114455.1", "taxid": 553466, "species_taxid": 553466, "relation_to_type": "type", "validated": true, "ani": 75.5967, "matched_fragments": 82, "total_fragments": 952, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 74.65, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_000496235.1", "gtdb_species": "s__J07HR59 sp000496235", "ani": 99.9743, "matched_fragments": 924, "total_fragments": 952, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloferacaceae;g__J07HR59", "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_900107205.1", "gtdb_species": "s__Halopenitus persicus", "ani": 76.4596, "matched_fragments": 94, "total_fragments": 952, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloferacaceae;g__Halopenitus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.02", "min_intra_species_ani": "99.02", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000337415.1", "gtdb_species": "s__Halorubrum tebenquichense", "ani": 76.3746, "matched_fragments": 84, "total_fragments": 952, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloferacaceae;g__Halorubrum", "ani_circumscription_radius": 95.2282, "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_009742825.1", "gtdb_species": "s__Halorubrum sp009742825", "ani": 76.3383, "matched_fragments": 88, "total_fragments": 952, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloferacaceae;g__Halorubrum", "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_002952775.1", "gtdb_species": "s__Halalkaliarchaeum desulfuricum", "ani": 76.3307, "matched_fragments": 90, "total_fragments": 952, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloferacaceae;g__Halalkaliarchaeum", "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_000337075.1", "gtdb_species": "s__Halorubrum hochstenium", "ani": 76.1468, "matched_fragments": 94, "total_fragments": 952, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloferacaceae;g__Halorubrum", "ani_circumscription_radius": 95.2282, "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_003665935.1", "gtdb_species": "s__Halobellus sp003665935", "ani": 76.1266, "matched_fragments": 85, "total_fragments": 952, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloferacaceae;g__Halobellus", "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_000379085.1", "gtdb_species": "s__Halomicrobium katesii", "ani": 76.1125, "matched_fragments": 76, "total_fragments": 952, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halomicrobium", "ani_circumscription_radius": 96.8107, "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_009617995.1", "gtdb_species": "s__Halomicrobium sp009617995", "ani": 76.0403, "matched_fragments": 76, "total_fragments": 952, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halomicrobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.14", "min_intra_species_ani": "97.11", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000023965.1", "gtdb_species": "s__Halomicrobium mukohataei", "ani": 76.0344, "matched_fragments": 76, "total_fragments": 952, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloarculaceae;g__Halomicrobium", "ani_circumscription_radius": 96.8107, "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": 4, "status": "-" }, { "accession": "GCF_900114455.1", "gtdb_species": "s__Halogranum rubrum", "ani": 75.5921, "matched_fragments": 83, "total_fragments": 952, "gtdb_taxonomy": "d__Archaea;p__Halobacteriota;c__Halobacteria;o__Halobacteriales;f__Haloferacaceae;g__Halogranum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.00", "min_intra_species_ani": "97.00", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "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 }, "_gtdb_taxon": [ "d__Archaea", "p__Halobacteriota", "c__Halobacteria", "o__Halobacteriales", "f__Haloferacaceae", "g__J07HR59", "s__J07HR59 sp000496235" ], "_genome_taxon": [ "uncultured", "archaeon", "A07HR60", "d__Archaea", "p__Halobacteriota", "c__Halobacteria", "o__Halobacteriales", "f__Haloferacaceae", "g__J07HR59", "s__J07HR59 sp000496235", "Archaea", "Halobacteriota", "Halobacteria", "Halobacteriales", "Haloferacaceae", "J07HR59", "J07HR59", "sp000496235" ], "_meo": [ { "id": "MEO_0001128", "label": "hypersaline lake" } ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }