{ "type": "genome", "identifier": "GCA_011043195.1", "organism": "Desulfobacteraceae bacterium", "title": "Desulfobacteraceae bacterium", "description": "derived from metagenome; fragmented assembly; genus undefined", "data type": "Genome sequencing and assembly", "organization": "The University of Hong Kong", "publication": [ {} ], "properties": { "assembly_accession": "GCA_011043195.1", "bioproject": "PRJNA480137", "biosample": "SAMN09638426", "wgs_master": "DRCI00000000.1", "refseq_category": "na", "taxid": "2049433", "species_taxid": "2049433", "organism_name": "Desulfobacteraceae bacterium", "infraspecific_name": "", "isolate": "HyVt-248", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/29", "asm_name": "ASM1104319v1", "submitter": "The University of Hong Kong", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/011/043/195/GCA_011043195.1_ASM1104319v1", "excluded_from_refseq": "derived from metagenome; fragmented assembly; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-02-29", "dateModified": "2020-02-29", "datePublished": "2020-02-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Desulfobacteraceae bacterium" ], "sample_taxid": [ "2049433" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean:Southern Mariana Trough" ], "sample_host_location_id": [], "data_size": "0.620 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 86.46, "contamination": 5.01, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2165792", "Number of Sequences": "662", "Longest Sequences (bp)": "15701", "N50 (bp)": "3589", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "56.3", "Number of CDSs": "1287", "Average Protein Length": "290.3", "Coding Ratio (%)": "51.7", "Number of rRNAs": "1", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Desulfogranum mediterraneum", "strain": "strain=DSM 13871", "accession": "GCA_000429965.1", "taxid": 160661, "species_taxid": 160661, "relation_to_type": "type", "validated": true, "ani": 76.4336, "matched_fragments": 57, "total_fragments": 338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfobulbus elongatus", "strain": "strain=DSM 2908", "accession": "GCA_000621145.1", "taxid": 53332, "species_taxid": 53332, "relation_to_type": "type", "validated": true, "ani": 76.3953, "matched_fragments": 71, "total_fragments": 338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfobulbus propionicus", "strain": "strain=DSM 2032", "accession": "GCA_000186885.1", "taxid": 894, "species_taxid": 894, "relation_to_type": "type", "validated": true, "ani": 76.3207, "matched_fragments": 70, "total_fragments": 338, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 86.46, "contamination": 5.01, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_002897615.1", "gtdb_species": "s__BMS3Abin13 sp002897615", "ani": 99.7199, "matched_fragments": 330, "total_fragments": 338, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobulbia;o__Desulfobulbales;f__Desulfobulbaceae;g__BMS3Abin13", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.72", "min_intra_species_ani": "95.88", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCA_013151365.1", "gtdb_species": "s__BMS3Abin13 sp013151365", "ani": 91.6908, "matched_fragments": 269, "total_fragments": 338, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobulbia;o__Desulfobulbales;f__Desulfobulbaceae;g__BMS3Abin13", "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_015484845.1", "gtdb_species": "s__DRKI01 sp015484845", "ani": 77.5706, "matched_fragments": 100, "total_fragments": 338, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobulbia;o__Desulfobulbales;f__Desulfobulbaceae;g__DRKI01", "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_011051875.1", "gtdb_species": "s__DRKI01 sp011051875", "ani": 77.2167, "matched_fragments": 87, "total_fragments": 338, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobulbia;o__Desulfobulbales;f__Desulfobulbaceae;g__DRKI01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.14", "min_intra_species_ani": "99.09", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_011372855.1", "gtdb_species": "s__UBA10518 sp011372855", "ani": 77.1479, "matched_fragments": 80, "total_fragments": 338, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobulbia;o__Desulfobulbales;f__Desulfobulbaceae;g__UBA10518", "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_003604995.1", "gtdb_species": "s__UBA10518 sp003604995", "ani": 77.0471, "matched_fragments": 58, "total_fragments": 338, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobulbia;o__Desulfobulbales;f__Desulfobulbaceae;g__UBA10518", "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_011051825.1", "gtdb_species": "s__DRLX01 sp011051825", "ani": 76.995, "matched_fragments": 54, "total_fragments": 338, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobulbia;o__Desulfobulbales;f__Desulfobulbaceae;g__DRLX01", "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_000621145.1", "gtdb_species": "s__Desulfobulbus elongatus", "ani": 76.3953, "matched_fragments": 71, "total_fragments": 338, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobulbia;o__Desulfobulbales;f__Desulfobulbaceae;g__Desulfobulbus", "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_000186885.1", "gtdb_species": "s__Desulfobulbus propionicus", "ani": 76.3207, "matched_fragments": 70, "total_fragments": 338, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobulbia;o__Desulfobulbales;f__Desulfobulbaceae;g__Desulfobulbus", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.042, "cell_length": 0.364, "doubling_h": 1.305, "growth_tmp": 28.037, "optimum_tmp": 30.588, "optimum_ph": 7.267, "genome_size": 5675869.625, "gc_content": 51.573, "coding_genes": 4621.583, "rRNA16S_genes": 3.75, "tRNA_genes": 52.25, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.619, "range_salinity": 1.0, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.695, "coccus_cell_shape": 0.043, "filament_cell_shape": 0.043, "coccobacillus_cell_shape": 0.086, "vibrio_cell_shape": 0.13, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Desulfobacterota", "c__Desulfobulbia", "o__Desulfobulbales", "f__Desulfobulbaceae", "g__BMS3Abin13", "s__BMS3Abin13 sp002897615" ], "_genome_taxon": [ "Desulfobacteraceae", "bacterium", "d__Bacteria", "p__Desulfobacterota", "c__Desulfobulbia", "o__Desulfobulbales", "f__Desulfobulbaceae", "g__BMS3Abin13", "s__BMS3Abin13 sp002897615", "Bacteria", "Desulfobacterota", "Desulfobulbia", "Desulfobulbales", "Desulfobulbaceae", "BMS3Abin13", "BMS3Abin13", "sp002897615" ], "_meo": [ { "id": "MEO_0000686", "label": "hydrothermal sediment" }, { "id": "MEO_0000031", "label": "hydrothermal vent" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }