{ "type": "genome", "identifier": "GCF_023660105.1", "organism": "Desulfovibrio aminophilus", "title": "Desulfovibrio aminophilus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of California-Riverside", "publication": [ {} ], "properties": { "assembly_accession": "GCF_023660105.1", "bioproject": "PRJNA224116", "biosample": "SAMN28456971", "wgs_master": "JAMHGA000000000.1", "refseq_category": "na", "taxid": "81425", "species_taxid": "81425", "organism_name": "Desulfovibrio aminophilus", "infraspecific_name": "strain=DSM 12254", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/06/07", "asm_name": "ASM2366010v1", "asm_submitter": "University of California-Riverside", "gbrs_paired_asm": "GCA_023660105.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/023/660/105/GCF_023660105.1_ASM2366010v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3541883", "genome_size_ungapped": "3541883", "gc_percent": "68.000000", "replicon_count": "0", "scaffold_count": "45", "contig_count": "45", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_023660105.1-RS_2024_08_28", "annotation_date": "2024-08-28", "total_gene_count": "3400", "protein_coding_gene_count": "3337", "non_coding_gene_count": "47", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-06-07", "dateModified": "2022-06-07", "datePublished": "2022-06-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Desulfovibrio aminophilus" ], "sample_taxid": [ "81425" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Corona" ], "sample_host_location_id": [], "data_size": "0.961 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)": "3541883", "Number of Sequences": "45", "Longest Sequences (bp)": "405492", "N50 (bp)": "148536", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "67.8", "Number of CDSs": "3325", "Average Protein Length": "321.1", "Coding Ratio (%)": "90.4", "Number of rRNAs": "0", "Number of tRNAs": "53", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudodesulfovibrio mercurii", "strain": "strain=ND132", "accession": "GCA_000189295.2", "taxid": 641491, "species_taxid": 641491, "relation_to_type": "type", "validated": true, "ani": 79.4014, "matched_fragments": 502, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paucidesulfovibrio longus", "strain": "strain=DSM 6739", "accession": "GCA_000420485.1", "taxid": 889, "species_taxid": 889, "relation_to_type": "type", "validated": true, "ani": 79.2884, "matched_fragments": 450, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio hydrargyri", "strain": "strain=BerOc1", "accession": "GCA_001874525.1", "taxid": 2125990, "species_taxid": 2125990, "relation_to_type": "type", "validated": true, "ani": 79.1968, "matched_fragments": 467, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio indicus", "strain": "strain=DSM 101483", "accession": "GCA_004365595.1", "taxid": 1716143, "species_taxid": 1716143, "relation_to_type": "type", "validated": true, "ani": 79.1099, "matched_fragments": 468, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio indicus", "strain": "strain=J2", "accession": "GCA_001563225.1", "taxid": 1716143, "species_taxid": 1716143, "relation_to_type": "type", "validated": true, "ani": 79.0674, "matched_fragments": 472, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio aespoeensis", "strain": "strain=Aspo-2", "accession": "GCA_000176915.2", "taxid": 182210, "species_taxid": 182210, "relation_to_type": "type", "validated": true, "ani": 78.8555, "matched_fragments": 407, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fundidesulfovibrio magnetotacticus", "strain": "strain=FSS-1", "accession": "GCA_013019105.1", "taxid": 2730080, "species_taxid": 2730080, "relation_to_type": "type", "validated": true, "ani": 78.4961, "matched_fragments": 428, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfohalovibrio alkalitolerans", "strain": "strain=DSM 16529", "accession": "GCA_000422245.1", "taxid": 293256, "species_taxid": 293256, "relation_to_type": "type", "validated": true, "ani": 78.3962, "matched_fragments": 331, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfocurvibacter africanus subsp. africanus", "strain": "strain=DSM 2603", "accession": "GCA_000422545.1", "taxid": 1511600, "species_taxid": 873, "relation_to_type": "type", "validated": true, "ani": 78.3353, "matched_fragments": 309, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio alkaliphilus", "strain": "strain=F-1", "accession": "GCA_009729555.1", "taxid": 2661613, "species_taxid": 2661613, "relation_to_type": "type", "validated": true, "ani": 78.166, "matched_fragments": 328, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Solidesulfovibrio alcoholivorans", "strain": "strain=DSM 5433", "accession": "GCA_000702665.1", "taxid": 81406, "species_taxid": 81406, "relation_to_type": "type", "validated": true, "ani": 78.157, "matched_fragments": 366, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cupidesulfovibrio liaohensis", "strain": "strain=XJ01", "accession": "GCA_011682075.1", "taxid": 2604158, "species_taxid": 2604158, "relation_to_type": "type", "validated": true, "ani": 77.8107, "matched_fragments": 281, "total_fragments": 1160, "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": 77.6702, "matched_fragments": 253, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paucidesulfovibrio gracilis", "strain": "strain=DSM 16080", "accession": "GCA_900167125.1", "taxid": 47158, "species_taxid": 47158, "relation_to_type": "type", "validated": true, "ani": 77.5523, "matched_fragments": 183, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio vulgaris", "strain": "strain=Hildenborough", "accession": "GCA_000195755.1", "taxid": 881, "species_taxid": 881, "relation_to_type": "type", "validated": true, "ani": 77.009, "matched_fragments": 179, "total_fragments": 1160, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000422565.1", "gtdb_species": "s__Aminidesulfovibrio aminophilus", "ani": 91.9811, "matched_fragments": 944, "total_fragments": 1160, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Aminidesulfovibrio", "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_002382645.1", "gtdb_species": "s__Aminidesulfovibrio sp002382645", "ani": 86.1992, "matched_fragments": 713, "total_fragments": 1160, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Aminidesulfovibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.05", "min_intra_species_ani": "98.75", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_018822105.1", "gtdb_species": "s__Humidesulfovibrio sp018822105", "ani": 80.1415, "matched_fragments": 499, "total_fragments": 1160, "gtdb_taxonomy": 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"gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Humidesulfovibrio", "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_016932995.1", "gtdb_species": "s__JAFGBU01 sp016932995", "ani": 79.6283, "matched_fragments": 447, "total_fragments": 1160, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__JAFGBU01", "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_000420485.1", "gtdb_species": "s__Paucidesulfovibrio longus", "ani": 79.3139, "matched_fragments": 448, "total_fragments": 1160, "gtdb_taxonomy": 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"coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 1.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Desulfovibrio", "aminophilus" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }