{ "type": "genome", "identifier": "GCF_947077765.1", "organism": "Salinibacter grassmerensis", "title": "Salinibacter grassmerensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "IMEDEA", "publication": [ {} ], "properties": { "assembly_accession": "GCF_947077765.1", "bioproject": "PRJNA224116", "biosample": "SAMEA111451246", "wgs_master": "CAMTTF000000000.1", "refseq_category": "reference genome", "taxid": "3040353", "species_taxid": "3040353", "organism_name": "Salinibacter grassmerensis", "infraspecific_name": "strain=NZ140", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/10/18", "asm_name": "Salinibacter NZ140", "asm_submitter": "IMEDEA", "gbrs_paired_asm": "GCA_947077765.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/947/077/765/GCF_947077765.1_Salinibacter_NZ140", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3781529", "genome_size_ungapped": "3781529", "gc_percent": "64.000000", "replicon_count": "0", "scaffold_count": "19", "contig_count": "19", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_947077765.1-RS_2024_04_15", "annotation_date": "2024-04-15", "total_gene_count": "3111", "protein_coding_gene_count": "3044", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-10-18", "dateModified": "2022-10-18", "datePublished": "2022-10-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Salinibacter sp." ], "sample_taxid": [ "2065818" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.062 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)": "3781529", "Number of Sequences": "19", "Longest Sequences (bp)": "1096716", "N50 (bp)": "659197", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.1", "Number of CDSs": "3115", "Average Protein Length": "339.3", "Coding Ratio (%)": "83.9", "Number of rRNAs": "3", "Number of tRNAs": "48", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "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": 88.1735, "matched_fragments": 990, "total_fragments": 1250, "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": 84.1256, "matched_fragments": 888, "total_fragments": 1250, "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": 76.5984, "matched_fragments": 116, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salisaeta longa", "strain": "strain=DSM 21114", "accession": "GCA_000419585.1", "taxid": 503170, "species_taxid": 503170, "relation_to_type": "type", "validated": true, "ani": 76.4968, "matched_fragments": 137, "total_fragments": 1250, "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": 76.2727, "matched_fragments": 104, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Longimonas halophila", "strain": "strain=KCTC 42399", "accession": "GCA_002554705.1", "taxid": 1469170, "species_taxid": 1469170, "relation_to_type": "type", "validated": true, "ani": 76.0859, "matched_fragments": 113, "total_fragments": 1250, "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": 75.9043, "matched_fragments": 55, "total_fragments": 1250, "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": 75.6094, "matched_fragments": 105, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharopolyspora erythraea", "strain": "strain=DSM 40517", "accession": "GCA_002564065.1", "taxid": 1836, "species_taxid": 1836, "relation_to_type": "type", "validated": true, "ani": 74.9309, "matched_fragments": 59, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharopolyspora erythraea", "strain": "strain=NRRL 2338", "accession": "GCA_000062885.1", "taxid": 1836, "species_taxid": 1836, "relation_to_type": "type", "validated": true, "ani": 74.9262, "matched_fragments": 60, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharopolyspora erythraea", "strain": "strain=NRRL 2338", "accession": "GCA_000171635.1", "taxid": 1836, "species_taxid": 1836, "relation_to_type": "type", "validated": true, "ani": 74.72, "matched_fragments": 55, "total_fragments": 1250, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000013045.1", "gtdb_species": "s__Salinibacter ruber", "ani": 88.1784, "matched_fragments": 989, "total_fragments": 1250, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__Salinibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.51", "min_intra_species_ani": "97.79", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.85", "num_clustered_genomes": 14, "status": "-" }, { "accession": "GCF_002894645.1", "gtdb_species": "s__Salinibacter altiplanensis", "ani": 84.1148, "matched_fragments": 889, "total_fragments": 1250, "gtdb_taxonomy": 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"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_003022655.1", "gtdb_species": "s__Salinibacter sp003022655", "ani": 79.8127, "matched_fragments": 314, "total_fragments": 1250, "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_002894685.1", "gtdb_species": "s__Salinibacter luteus", "ani": 79.1189, "matched_fragments": 440, "total_fragments": 1250, "gtdb_taxonomy": 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"d__Bacteria;p__Bacteroidota;c__Rhodothermia;o__Rhodothermales;f__Salinibacteraceae;g__Salinibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.78", "min_intra_species_ani": "95.78", "mean_intra_species_af": "0.67", "min_intra_species_af": "0.67", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_003022435.1", "gtdb_species": "s__Salinibacter sp003022435", "ani": 77.958, "matched_fragments": 295, "total_fragments": 1250, "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_003023365.1", "gtdb_species": "s__Salinibacter sp003023365", "ani": 77.6863, "matched_fragments": 201, "total_fragments": 1250, "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": 76.0859, "matched_fragments": 113, "total_fragments": 1250, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": 1.146, "growth_tmp": 37.0, "optimum_tmp": 40.75, "optimum_ph": 8.75, "genome_size": 3670268.667, "gc_content": 64.438, "coding_genes": 2992.8, "rRNA16S_genes": 1.0, "tRNA_genes": 44.333, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 1.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "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": [ "Salinibacter", "grassmerensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }