{ "type": "genome", "identifier": "GCF_000717475.1", "organism": "Desulfonatronum thiodismutans", "title": "Desulfonatronum thiodismutans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "UNLV", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000717475.1", "bioproject": "PRJNA224116", "biosample": "SAMN02886980", "wgs_master": "JPIK00000000.1", "refseq_category": "reference genome", "taxid": "159290", "species_taxid": "159290", "organism_name": "Desulfonatronum thiodismutans", "infraspecific_name": "strain=MLF-1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/07/16", "asm_name": "ASM71747v2", "asm_submitter": "UNLV", "gbrs_paired_asm": "GCA_000717475.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/717/475/GCF_000717475.1_ASM71747v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3923654", "genome_size_ungapped": "3923654", "gc_percent": "58.500000", "replicon_count": "0", "scaffold_count": "34", "contig_count": "34", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000717475.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "3617", "protein_coding_gene_count": "3533", "non_coding_gene_count": "55", "pubmed_id": "25081260" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-07-16", "dateModified": "2014-07-16", "datePublished": "2014-07-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Desulfonatronum thiodismutans" ], "sample_taxid": [ "159290" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Mono Lake, CA" ], "sample_host_location_id": [], "data_size": "1.107 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)": "3923654", "Number of Sequences": "34", "Longest Sequences (bp)": "570720", "N50 (bp)": "269151", "Gap Ratio (%)": "0.000816", "GCcontent (%)": "58.7", "Number of CDSs": "3580", "Average Protein Length": "321.6", "Coding Ratio (%)": "88.0", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Desulfonatronum thiodismutans", "strain": "strain=MLF-1", "accession": "GCA_000717475.2", "taxid": 159290, "species_taxid": 159290, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1289, "total_fragments": 1292, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Desulfonatronum lacustre", "strain": "strain=DSM 10312", "accession": "GCA_000519265.1", "taxid": 66849, "species_taxid": 66849, "relation_to_type": "type", "validated": true, "ani": 89.5421, "matched_fragments": 964, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfonatronum thioautotrophicum", "strain": "strain=ASO4-1", "accession": "GCA_000934745.1", "taxid": 617001, "species_taxid": 617001, "relation_to_type": "type", "validated": true, "ani": 81.5849, "matched_fragments": 756, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfonatronum thiosulfatophilum", "strain": "strain=ASO4-2", "accession": "GCA_900104215.1", "taxid": 617002, "species_taxid": 617002, "relation_to_type": "type", "validated": true, "ani": 79.6792, "matched_fragments": 532, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfomicrobium escambiense", "strain": "strain=DSM 10707", "accession": "GCA_000428825.1", "taxid": 29503, "species_taxid": 29503, "relation_to_type": "type", "validated": true, "ani": 77.0018, "matched_fragments": 164, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio sulfodismutans", "strain": "strain=DSM 3696", "accession": "GCA_013376455.1", "taxid": 63561, "species_taxid": 63561, "relation_to_type": "type", "validated": true, "ani": 76.8838, "matched_fragments": 164, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Megalodesulfovibrio gigas", "strain": "strain=DSM 1382", "accession": "GCA_000429285.1", "taxid": 879, "species_taxid": 879, "relation_to_type": "type", "validated": true, "ani": 76.8315, "matched_fragments": 138, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fundidesulfovibrio putealis", "strain": "strain=DSM 16056", "accession": "GCA_000429325.1", "taxid": 270496, "species_taxid": 270496, "relation_to_type": "type", "validated": true, "ani": 76.3363, "matched_fragments": 159, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio tunisiensis", "strain": "strain=RB22", "accession": "GCA_022809775.1", "taxid": 463192, "species_taxid": 463192, "relation_to_type": "type", "validated": true, "ani": 76.1407, "matched_fragments": 104, "total_fragments": 1292, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000717475.1", "gtdb_species": "s__Desulfonatronum thiodismutans", "ani": 100.0, "matched_fragments": 1289, "total_fragments": 1292, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfonatronaceae;g__Desulfonatronum", "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_003046795.1", "gtdb_species": "s__Desulfonatronum sp003046795", "ani": 91.0511, "matched_fragments": 969, "total_fragments": 1292, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfonatronaceae;g__Desulfonatronum", "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_000519265.1", "gtdb_species": "s__Desulfonatronum lacustre", "ani": 89.5579, "matched_fragments": 963, "total_fragments": 1292, "gtdb_taxonomy": 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"d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfonatronaceae;g__Desulfonatronum", "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_000934745.1", "gtdb_species": "s__Desulfonatronum thioautotrophicum", "ani": 81.5922, "matched_fragments": 754, "total_fragments": 1292, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfonatronaceae;g__Desulfonatronum", "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_900104215.1", "gtdb_species": "s__Desulfonatronum thiosulfatophilum", "ani": 79.6569, "matched_fragments": 534, "total_fragments": 1292, 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0.0, "vibrio_cell_shape": 1.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Desulfonatronum", "thiodismutans" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }