{ "type": "genome", "identifier": "GCF_000144645.1", "organism": "Thermosediminibacter oceani DSM 16646", "title": "Thermosediminibacter oceani DSM 16646", "description": "na", "data type": "Genome sequencing and assembly", "organization": "US DOE Joint Genome Institute (JGI-PGF)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000144645.1", "bioproject": "PRJNA224116", "biosample": "SAMN00713558", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "555079", "species_taxid": "291990", "organism_name": "Thermosediminibacter oceani DSM 16646", "infraspecific_name": "strain=DSM 16646", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2010/08/05", "asm_name": "ASM14464v1", "asm_submitter": "US DOE Joint Genome Institute (JGI-PGF)", "gbrs_paired_asm": "GCA_000144645.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/144/645/GCF_000144645.1_ASM14464v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2280035", "genome_size_ungapped": "2280035", "gc_percent": "47.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000144645.1-RS_2024_05_01", "annotation_date": "2024-05-01", "total_gene_count": "2327", "protein_coding_gene_count": "2208", "non_coding_gene_count": "64", "pubmed_id": "21304740" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2010-08-05", "dateModified": "2010-08-05", "datePublished": "2010-08-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Thermosediminibacter oceani DSM 16646" ], "sample_taxid": [ "555079" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [ "None" ], "sample_host_disease_id": [], "sample_host_location": [ "Peru" ], "sample_host_location_id": [], "data_size": "0.644 MB", "sample_ph_range": { "min": 6393.0, "max": 6393.0 }, "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)": "2280035", "Number of Sequences": "1", "Longest Sequences (bp)": "2280035", "N50 (bp)": "2280035", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "46.8", "Number of CDSs": "2307", "Average Protein Length": "291.7", "Coding Ratio (%)": "88.6", "Number of rRNAs": "9", "Number of tRNAs": "51", "Number of CRISPRs": "6" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thermosediminibacter oceani", "strain": "strain=DSM 16646", "accession": "GCA_000144645.1", "taxid": 291990, "species_taxid": 291990, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 759, "total_fragments": 760, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Thermosediminibacter litoriperuensis", "strain": "strain=DSM 16647", "accession": "GCA_008124715.1", "taxid": 291989, "species_taxid": 291989, "relation_to_type": "type", "validated": true, "ani": 88.8552, "matched_fragments": 563, "total_fragments": 760, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000144645.1", "gtdb_species": "s__Thermosediminibacter oceani", "ani": 100.0, "matched_fragments": 760, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Thermosediminibacteria;o__Thermosediminibacterales;f__Thermosediminibacteraceae;g__Thermosediminibacter", "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_008124715.1", "gtdb_species": "s__Thermosediminibacter litoriperuensis", "ani": 88.8674, "matched_fragments": 562, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Thermosediminibacteria;o__Thermosediminibacterales;f__Thermosediminibacteraceae;g__Thermosediminibacter", "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_001562425.1", "gtdb_species": "s__Fervidicola ferrireducens", "ani": 78.7184, "matched_fragments": 223, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Thermosediminibacteria;o__Thermosediminibacterales;f__Thermosediminibacteraceae;g__Fervidicola", "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_003242255.1", "gtdb_species": "s__ZC4RG34 sp003242255", "ani": 78.2864, "matched_fragments": 126, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Thermosediminibacteria;o__Thermosediminibacterales;f__Thermosediminibacteraceae;g__ZC4RG34", "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_012840135.1", "gtdb_species": "s__Biomaibacter sp012840135", "ani": 76.8444, "matched_fragments": 55, "total_fragments": 760, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Thermosediminibacteria;o__Thermosediminibacterales;f__Tepidanaerobacteraceae;g__Biomaibacter", "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": -0.699, "cell_length": 0.176, "doubling_h": null, "growth_tmp": 67.0, "optimum_tmp": 66.667, "optimum_ph": 7.5, "genome_size": 2280034.0, "gc_content": 48.4, "coding_genes": 2196.333, "rRNA16S_genes": 3.0, "tRNA_genes": 51.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "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": [ "Thermosediminibacter", "oceani", "DSM", "16646" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }