{ "type": "genome", "identifier": "GCA_938033265.1", "organism": "uncultured Desulfovibrio sp.", "title": "uncultured Desulfovibrio sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "European Bioinformatics Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCA_938033265.1", "bioproject": "PRJEB51075", "biosample": "SAMEA14084383", "wgs_master": "CALHJT000000000.1", "refseq_category": "na", "taxid": "167968", "species_taxid": "167968", "organism_name": "uncultured Desulfovibrio sp.", "infraspecific_name": "", "isolate": "ERR414453_bin.81_CONCOCT_v1.1_MAG", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/01/11", "asm_name": "ERR414453_bin.81_CONCOCT_v1.1_MAG", "submitter": "European Bioinformatics Institute", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/938/033/265/GCA_938033265.1_ERR414453_bin.81_CONCOCT_v1.1_MAG", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-01-11", "dateModified": "2023-01-11", "datePublished": "2023-01-11", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Desulfovibrio sp." ], "sample_taxid": [ "167968" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Spain" ], "sample_host_location_id": [], "data_size": "1.047 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 1.39, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3697840", "Number of Sequences": "124", "Longest Sequences (bp)": "171102", "N50 (bp)": "50029", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.9", "Number of CDSs": "3142", "Average Protein Length": "332.6", "Coding Ratio (%)": "84.8", "Number of rRNAs": "1", "Number of tRNAs": "47", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mailhella massiliensis", "strain": "strain=Marseille-P3199", "accession": "GCA_900155525.1", "taxid": 1903261, "species_taxid": 1903261, "relation_to_type": "type", "validated": true, "ani": 79.4159, "matched_fragments": 224, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio porci", "strain": "strain=PG-178-WT-4", "accession": "GCA_009696265.1", "taxid": 2605782, "species_taxid": 2605782, "relation_to_type": "type", "validated": true, "ani": 77.3905, "matched_fragments": 147, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio vulgaris", "strain": "strain=Hildenborough", "accession": "GCA_902167245.1", "taxid": 881, "species_taxid": 881, "relation_to_type": "type", "validated": true, "ani": 77.2046, "matched_fragments": 64, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bilophila wadsworthia", "strain": "strain=ATCC 49260", "accession": "GCA_000701705.1", "taxid": 35833, "species_taxid": 35833, "relation_to_type": "type", "validated": true, "ani": 77.1861, "matched_fragments": 137, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio piger", "strain": "strain=ATCC 29098", "accession": "GCA_000156375.1", "taxid": 901, "species_taxid": 901, "relation_to_type": "suspected-type", "validated": true, "ani": 77.0622, "matched_fragments": 129, "total_fragments": 1170, "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": 77.0274, "matched_fragments": 66, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cupidesulfovibrio termitidis", "strain": "strain=HI1", "accession": "GCA_000504305.1", "taxid": 42252, "species_taxid": 42252, "relation_to_type": "type", "validated": true, "ani": 76.9276, "matched_fragments": 115, "total_fragments": 1170, "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": 76.8847, "matched_fragments": 95, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio intestinalis", "strain": "strain=DSM 11275", "accession": "GCA_014202345.1", "taxid": 58621, "species_taxid": 58621, "relation_to_type": "type", "validated": true, "ani": 76.6297, "matched_fragments": 78, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio legallii", "strain": "strain=H1T", "accession": "GCA_004309735.1", "taxid": 571438, "species_taxid": 571438, "relation_to_type": "type", "validated": true, "ani": 76.5573, "matched_fragments": 96, "total_fragments": 1170, "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": 76.2423, "matched_fragments": 53, "total_fragments": 1170, "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": 76.1654, "matched_fragments": 51, "total_fragments": 1170, "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": 75.9933, "matched_fragments": 68, "total_fragments": 1170, "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": 75.6352, "matched_fragments": 53, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio sulfodismutans", "strain": "strain=DSM 3696", "accession": "GCA_010499425.1", "taxid": 63561, "species_taxid": 63561, "relation_to_type": "type", "validated": true, "ani": 75.6204, "matched_fragments": 50, "total_fragments": 1170, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 1.39, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_003150275.1", "gtdb_species": "s__Mailhella excrementigallinarum", "ani": 99.3147, "matched_fragments": 964, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Mailhella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.40", "min_intra_species_ani": "99.36", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.81", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCA_910579055.1", "gtdb_species": "s__Mailhella sp910579055", "ani": 84.6288, "matched_fragments": 649, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Mailhella", "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_019119045.1", "gtdb_species": "s__Mailhella merdavium", "ani": 81.2012, "matched_fragments": 513, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Mailhella", "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_900155525.1", "gtdb_species": "s__Mailhella massiliensis", "ani": 79.4382, "matched_fragments": 223, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Mailhella", "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_900541395.1", "gtdb_species": "s__Mailhella merdigallinarum", "ani": 79.0833, "matched_fragments": 261, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Mailhella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.42", "min_intra_species_ani": "99.13", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.80", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_900553065.1", "gtdb_species": "s__Mailhella sp900553065", "ani": 78.151, "matched_fragments": 130, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Mailhella", "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_905187505.1", "gtdb_species": "s__Mailhella sp905187505", "ani": 78.1332, "matched_fragments": 169, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Mailhella", "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_905192935.1", "gtdb_species": "s__Mailhella sp905192935", "ani": 77.8663, "matched_fragments": 122, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Mailhella", "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_009696265.1", "gtdb_species": "s__Desulfovibrio porci", "ani": 77.3897, "matched_fragments": 147, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Desulfovibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.64", "min_intra_species_ani": "99.64", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000195755.1", "gtdb_species": "s__Nitratidesulfovibrio vulgaris", "ani": 77.0931, "matched_fragments": 65, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Nitratidesulfovibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.25", "min_intra_species_ani": "98.85", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_013376455.1", "gtdb_species": "s__Desulfolutivibrio sulfodismutans", "ani": 75.6368, "matched_fragments": 55, "total_fragments": 1170, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Desulfolutivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.259, "cell_length": 0.375, "doubling_h": 1.142, "growth_tmp": 32.446, "optimum_tmp": 33.065, "optimum_ph": 7.283, "genome_size": 3735623.274, "gc_content": 57.077, "coding_genes": 3187.904, "rRNA16S_genes": 3.788, "tRNA_genes": 62.766, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.947, "range_salinity": 0.5, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 0.937, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.062, "bacillus_cell_shape": 0.464, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.535, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Desulfobacterota", "c__Desulfovibrionia", "o__Desulfovibrionales", "f__Desulfovibrionaceae", "g__Mailhella", "s__Mailhella excrementigallinarum" ], "_genome_taxon": [ "uncultured", "Desulfovibrio", "sp.", "d__Bacteria", "p__Desulfobacterota", "c__Desulfovibrionia", "o__Desulfovibrionales", "f__Desulfovibrionaceae", "g__Mailhella", "s__Mailhella excrementigallinarum", "Bacteria", "Desulfobacterota", "Desulfovibrionia", "Desulfovibrionales", "Desulfovibrionaceae", "Mailhella", "Mailhella", "excrementigallinarum" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }