{ "type": "genome", "identifier": "GCF_000430005.1", "organism": "Desulfovibrio cuneatus DSM 11391", "title": "Desulfovibrio cuneatus DSM 11391", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000430005.1", "bioproject": "PRJNA224116", "biosample": "SAMN02440626", "wgs_master": "AUCY00000000.1", "refseq_category": "reference genome", "taxid": "1121443", "species_taxid": "159728", "organism_name": "Desulfovibrio cuneatus DSM 11391", "infraspecific_name": "strain=DSM 11391", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/07/15", "asm_name": "ASM43000v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000430005.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/430/005/GCF_000430005.1_ASM43000v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3359127", "genome_size_ungapped": "3356409", "gc_percent": "53.500000", "replicon_count": "0", "scaffold_count": "76", "contig_count": "81", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000430005.1-RS_2024_08_07", "annotation_date": "2024-08-07", "total_gene_count": "2804", "protein_coding_gene_count": "2729", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-07-15", "dateModified": "2013-07-15", "datePublished": "2013-07-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Desulfovibrio cuneatus DSM 11391" ], "sample_taxid": [ "1121443" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany" ], "sample_host_location_id": [], "data_size": "0.945 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)": "3359127", "Number of Sequences": "76", "Longest Sequences (bp)": "341039", "N50 (bp)": "109697", "Gap Ratio (%)": "0.080914", "GCcontent (%)": "53.5", "Number of CDSs": "2741", "Average Protein Length": "333.9", "Coding Ratio (%)": "81.7", "Number of rRNAs": "0", "Number of tRNAs": "46", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Desulfovibrio cuneatus", "strain": "strain=DSM 11391", "accession": "GCA_000430005.1", "taxid": 159728, "species_taxid": 159728, 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76.0654, "matched_fragments": 59, "total_fragments": 1082, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oleidesulfovibrio alaskensis", "strain": "strain=DSM 16109", "accession": "GCA_000482745.1", "taxid": 58180, "species_taxid": 58180, "relation_to_type": "type", "validated": true, "ani": 75.9217, "matched_fragments": 54, "total_fragments": 1082, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cupidesulfovibrio oxamicus", "strain": "strain=NCIMB 9442", "accession": "GCA_015731765.1", "taxid": 32016, "species_taxid": 32016, "relation_to_type": "type", "validated": true, "ani": 75.7892, "matched_fragments": 61, "total_fragments": 1082, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000430005.1", "gtdb_species": "s__Frigididesulfovibrio cuneatus", "ani": 99.9999, "matched_fragments": 1075, 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76.0642, "matched_fragments": 68, "total_fragments": 1082, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Cupidesulfovibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.66", "min_intra_species_ani": "96.06", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.84", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_000021385.1", "gtdb_species": "s__Cupidesulfovibrio vulgaris_A", "ani": 76.0182, "matched_fragments": 65, "total_fragments": 1082, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Cupidesulfovibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.08", "min_intra_species_ani": "97.08", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000482745.1", "gtdb_species": "s__Oleidesulfovibrio 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