{ "type": "genome", "identifier": "GCF_900113335.1", "organism": "Desulfotruncus arcticus DSM 17038", "title": "Desulfotruncus arcticus DSM 17038", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900113335.1", "bioproject": "PRJNA224116", "biosample": "SAMN05660649", "wgs_master": "FOOX00000000.1", "refseq_category": "reference genome", "taxid": "1121424", "species_taxid": "341036", "organism_name": "Desulfotruncus arcticus DSM 17038", "infraspecific_name": "strain=DSM 17038", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/11/02", "asm_name": "IMG-taxon 2599185230 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900113335.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/113/335/GCF_900113335.1_IMG-taxon_2599185230_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5215335", "genome_size_ungapped": "5215050", "gc_percent": "45.500000", "replicon_count": "0", "scaffold_count": "55", "contig_count": "55", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900113335.1-RS_2024_07_03", "annotation_date": "2024-07-03", "total_gene_count": "5211", "protein_coding_gene_count": "5049", "non_coding_gene_count": "73", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-11-02", "dateModified": "2016-11-02", "datePublished": "2016-11-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Desulfotruncus arcticus DSM 17038" ], "sample_taxid": [ "1121424" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Norway:West coast of Svalbard, Norway" ], "sample_host_location_id": [], "data_size": "1.484 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)": "5215335", "Number of Sequences": "55", "Longest Sequences (bp)": "509593", "N50 (bp)": "203771", "Gap Ratio (%)": "0.005465", "GCcontent (%)": "45.7", "Number of CDSs": "5058", "Average Protein Length": "292.6", "Coding Ratio (%)": "85.1", "Number of rRNAs": "3", "Number of tRNAs": "57", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Desulfotruncus arcticus", "strain": "strain=DSM 17038", "accession": "GCA_900113335.1", "taxid": 341036, "species_taxid": 341036, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1707, "total_fragments": 1710, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Desulfotruncus alcoholivorax", "strain": "strain=DSM 16058", "accession": "GCA_000430885.1", "taxid": 265477, "species_taxid": 265477, "relation_to_type": "type", "validated": true, "ani": 85.4181, "matched_fragments": 806, "total_fragments": 1710, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfoscipio geothermicus", "strain": "strain=DSM 3669", "accession": "GCA_900115975.1", "taxid": 39060, "species_taxid": 39060, "relation_to_type": "type", "validated": true, "ani": 78.4421, "matched_fragments": 212, "total_fragments": 1710, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfofundulus salinum", "strain": "strain=435", "accession": "GCA_003627965.1", "taxid": 2419843, "species_taxid": 2419843, "relation_to_type": "type", "validated": true, "ani": 75.8899, "matched_fragments": 54, "total_fragments": 1710, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900113335.1", "gtdb_species": "s__Desulfotruncus arcticus", "ani": 100.0, "matched_fragments": 1707, "total_fragments": 1710, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Desulfotomaculales;f__Desulfallaceae;g__Desulfotruncus", "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_000430885.1", "gtdb_species": "s__Desulfotruncus alcoholivorax", "ani": 85.4024, "matched_fragments": 807, "total_fragments": 1710, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Desulfotomaculales;f__Desulfallaceae;g__Desulfotruncus", "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_900115975.1", "gtdb_species": "s__Desulfoscipio geothermicus", "ani": 78.4604, "matched_fragments": 211, "total_fragments": 1710, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Desulfotomaculales;f__Desulfallaceae;g__Desulfoscipio", "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_016841675.1", "gtdb_species": "s__BRH-c8a sp016841675", "ani": 78.0537, "matched_fragments": 152, "total_fragments": 1710, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Desulfotomaculales;f__Desulfallaceae;g__BRH-c8a", "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_000961575.1", "gtdb_species": "s__BRH-c8a sp000961575", "ani": 78.0031, "matched_fragments": 168, "total_fragments": 1710, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Desulfotomaculales;f__Desulfallaceae;g__BRH-c8a", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.51", "min_intra_species_ani": "98.49", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_015594625.1", "gtdb_species": "s__Desulfotruncus sp015594625", "ani": 77.9796, "matched_fragments": 226, "total_fragments": 1710, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Desulfotomaculales;f__Desulfallaceae;g__Desulfotruncus", "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_009428905.1", "gtdb_species": "s__Desulfofundulus_A thermobenzoicus", "ani": 76.2921, "matched_fragments": 70, "total_fragments": 1710, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Desulfotomaculales;f__Desulfovirgulaceae;g__Desulfofundulus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.96", "min_intra_species_ani": "95.37", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003627965.1", "gtdb_species": "s__Desulfofundulus salinum", "ani": 75.8899, "matched_fragments": 54, "total_fragments": 1710, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_B;c__Desulfotomaculia;o__Desulfotomaculales;f__Desulfovirgulaceae;g__Desulfofundulus", "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": 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 }, "_genome_taxon": [ "Desulfotruncus", "arcticus", "DSM", "17038" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }