{ "type": "genome", "identifier": "GCF_026230175.1", "organism": "Desulfovibrio mangrovi", "title": "Desulfovibrio mangrovi", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shenzhen University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_026230175.1", "bioproject": "PRJNA224116", "biosample": "SAMN30678165", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2976983", "species_taxid": "2976983", "organism_name": "Desulfovibrio mangrovi", "infraspecific_name": "strain=FT415", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/11/18", "asm_name": "ASM2623017v1", "asm_submitter": "Shenzhen University", "gbrs_paired_asm": "GCA_026230175.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/026/230/175/GCF_026230175.1_ASM2623017v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3947083", "genome_size_ungapped": "3947083", "gc_percent": "56.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_026230175.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "3524", "protein_coding_gene_count": "3426", "non_coding_gene_count": "82", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-11-18", "dateModified": "2022-11-18", "datePublished": "2022-11-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Desulfovibrio mangrovi" ], "sample_taxid": [ "2976983" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.114 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)": "3947083", "Number of Sequences": "1", "Longest Sequences (bp)": "3947083", "N50 (bp)": "3947083", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "56.7", "Number of CDSs": "3526", "Average Protein Length": "324.1", "Coding Ratio (%)": "86.9", "Number of rRNAs": "18", "Number of tRNAs": "61", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Desulfovibrio subterraneus", "strain": "strain=HN2", "accession": "GCA_013340285.1", "taxid": 2718620, "species_taxid": 2718620, "relation_to_type": "type", "validated": true, "ani": 84.0173, "matched_fragments": 959, "total_fragments": 1315, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio psychrotolerans", "strain": "strain=JS1", "accession": "GCA_013340305.1", "taxid": 415242, "species_taxid": 415242, "relation_to_type": "type", "validated": true, "ani": 79.6778, "matched_fragments": 572, "total_fragments": 1315, "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": 78.086, "matched_fragments": 265, "total_fragments": 1315, "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": 78.007, "matched_fragments": 240, "total_fragments": 1315, "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": 77.9392, "matched_fragments": 223, "total_fragments": 1315, "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": 77.822, "matched_fragments": 211, "total_fragments": 1315, "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": 77.8194, "matched_fragments": 217, "total_fragments": 1315, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oleidesulfovibrio alaskensis", "strain": "strain=DSM 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"GCF_013340285.1", "gtdb_species": "s__Halodesulfovibrio subterraneus", "ani": 84.0032, "matched_fragments": 961, "total_fragments": 1315, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Halodesulfovibrio", "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_003252375.1", "gtdb_species": "s__Halodesulfovibrio sp003252375", "ani": 81.2014, "matched_fragments": 610, "total_fragments": 1315, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Halodesulfovibrio", "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_013340305.1", "gtdb_species": "s__Halodesulfovibrio psychrotolerans", "ani": 79.6862, "matched_fragments": 571, "total_fragments": 1315, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Halodesulfovibrio", "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_000504305.1", "gtdb_species": "s__Cupidesulfovibrio termitidis", "ani": 78.0991, "matched_fragments": 266, "total_fragments": 1315, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Cupidesulfovibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.21", "min_intra_species_ani": "98.21", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000021385.1", "gtdb_species": "s__Cupidesulfovibrio vulgaris_A", "ani": 77.9796, "matched_fragments": 273, "total_fragments": 1315, "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_015731765.1", "gtdb_species": "s__Cupidesulfovibrio oxamicus", "ani": 77.9706, "matched_fragments": 221, "total_fragments": 1315, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Cupidesulfovibrio", "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_000482745.1", "gtdb_species": "s__Oleidesulfovibrio alaskensis", "ani": 77.5688, "matched_fragments": 199, "total_fragments": 1315, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Oleidesulfovibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.29", "min_intra_species_ani": "99.19", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.95", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_902373525.1", "gtdb_species": "s__Bilophila sp902373525", "ani": 76.9938, "matched_fragments": 117, "total_fragments": 1315, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Bilophila", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.79", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", 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"-" } ] }, "_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 }, "_genome_taxon": [ "Desulfovibrio", "mangrovi" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }