{ "type": "genome", "identifier": "GCF_000419585.1", "organism": "Salisaeta longa DSM 21114", "title": "Salisaeta longa DSM 21114", "description": "na", "data type": "Genome sequencing and assembly", "organization": "JGI", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000419585.1", "bioproject": "PRJNA224116", "biosample": "SAMN02441591", "wgs_master": "ATTH00000000.1", "refseq_category": "reference genome", "taxid": "1089550", "species_taxid": "503170", "organism_name": "Salisaeta longa DSM 21114", "infraspecific_name": "strain=DSM 21114", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/07/09", "asm_name": "ASM41958v1", "asm_submitter": "JGI", "gbrs_paired_asm": "GCA_000419585.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/419/585/GCF_000419585.1_ASM41958v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3399024", "genome_size_ungapped": "3399024", "gc_percent": "63.500000", "replicon_count": "0", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000419585.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "2783", "protein_coding_gene_count": "2719", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-07-09", "dateModified": "2013-07-09", "datePublished": "2013-07-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Salisaeta longa DSM 21114" ], "sample_taxid": [ "1089550" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Israel" ], "sample_host_location_id": [], "data_size": "0.949 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)": "3399024", "Number of Sequences": "3", "Longest Sequences (bp)": "3192765", "N50 (bp)": "3192765", "Gap Ratio (%)": "0.000412", "GCcontent (%)": "63.5", "Number of CDSs": "2746", "Average Protein Length": "359.8", "Coding Ratio (%)": "87.2", "Number of rRNAs": "3", "Number of tRNAs": "47", "Number of CRISPRs": "12" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Salisaeta longa", "strain": "strain=DSM 21114", "accession": "GCA_000419585.1", "taxid": 503170, "species_taxid": 503170, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1132, "total_fragments": 1132, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Longimonas halophila", "strain": "strain=KCTC 42399", "accession": "GCA_002554705.1", "taxid": 1469170, "species_taxid": 1469170, "relation_to_type": "type", "validated": true, "ani": 76.9327, "matched_fragments": 166, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinibacter ruber", "strain": "strain=DSM 13855; M31", "accession": "GCA_000013045.1", "taxid": 146919, "species_taxid": 146919, "relation_to_type": "type", "validated": true, "ani": 76.8631, "matched_fragments": 150, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodocaloribacter litoris", "strain": "strain=ISCAR-4553", "accession": "GCA_011682235.2", "taxid": 2558931, "species_taxid": 2558931, "relation_to_type": "type", "validated": true, "ani": 76.6946, "matched_fragments": 120, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salinibacter altiplanensis", "strain": "strain=AN15", "accession": "GCA_002894645.1", "taxid": 1803181, "species_taxid": 1803181, "relation_to_type": "type", "validated": true, "ani": 76.4746, "matched_fragments": 132, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Longibacter salinarum", "strain": "strain=KCTC 52045", "accession": "GCA_002554795.1", "taxid": 1850348, "species_taxid": 1850348, "relation_to_type": "type", "validated": true, "ani": 76.3006, "matched_fragments": 103, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubricoccus marinus", "strain": "strain=SG-29", "accession": "GCA_002257665.1", "taxid": 716817, "species_taxid": 716817, "relation_to_type": "type", "validated": true, "ani": 75.8438, "matched_fragments": 70, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrivirga marina", "strain": "strain=SAORIC-28", "accession": "GCA_002283365.1", "taxid": 1196024, "species_taxid": 1196024, "relation_to_type": "type", "validated": true, "ani": 75.5964, "matched_fragments": 82, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hymenobacter jeollabukensis", "strain": "strain=1-3-3-8", "accession": "GCA_005771675.1", "taxid": 2025313, "species_taxid": 2025313, "relation_to_type": "type", "validated": true, "ani": 75.0254, "matched_fragments": 65, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000419585.1", "gtdb_species": "s__Salisaeta longa", "ani": 100.0, "matched_fragments": 1132, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__Salisaeta", "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": "GCA_003022565.1", "gtdb_species": "s__Salinibacter sp003022565", "ani": 76.9447, "matched_fragments": 122, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__Salinibacter", "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_002554705.1", "gtdb_species": "s__Longimonas halophila", "ani": 76.9327, "matched_fragments": 166, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__Longimonas", "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_002894685.1", "gtdb_species": "s__Salinibacter luteus", "ani": 76.9, "matched_fragments": 193, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__Salinibacter", "ani_circumscription_radius": 96.2585, "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_009908415.1", "gtdb_species": "s__JAAAPH01 sp009908415", "ani": 76.827, "matched_fragments": 174, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__JAAAPH01", "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_002894665.1", "gtdb_species": "s__Salinibacter iranicus", "ani": 76.7564, "matched_fragments": 177, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__Salinibacter", "ani_circumscription_radius": 96.2585, "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_018609755.1", "gtdb_species": "s__Salinibacter sp018609755", "ani": 76.6174, "matched_fragments": 135, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__Salinibacter", "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_002894645.1", "gtdb_species": "s__Salinibacter altiplanensis", "ani": 76.5066, "matched_fragments": 130, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__Salinibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.33", "min_intra_species_ani": "98.12", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_003023105.1", "gtdb_species": "s__Salinibacter sp003023105", "ani": 76.5015, "matched_fragments": 74, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__Salinibacter", "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_009908885.1", "gtdb_species": "s__JAAAOL01 sp009908885", "ani": 76.486, "matched_fragments": 142, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__JAAAOL01", "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_002554795.1", "gtdb_species": "s__Longibacter salinarum", "ani": 76.3271, "matched_fragments": 104, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__Longibacter", "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_003023275.1", "gtdb_species": "s__QS-8-64-10 sp003023275", "ani": 76.0517, "matched_fragments": 94, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__QS-8-64-10", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.61", "min_intra_species_ani": "97.46", "mean_intra_species_af": "0.68", "min_intra_species_af": "0.68", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_003022485.1", "gtdb_species": "s__QS-8-64-10 sp003022485", "ani": 75.9169, "matched_fragments": 77, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__QS-8-64-10", "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": null, "cell_length": 1.352, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 41.5, "optimum_ph": 7.5, "genome_size": 3399024.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": null, "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": [ "Salisaeta", "longa", "DSM", "21114" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }