{ "type": "genome", "identifier": "GCA_013138655.1", "organism": "Desulfuromonadaceae bacterium", "title": "Desulfuromonadaceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "GNS Science", "publication": [ {} ], "properties": { "assembly_accession": "GCA_013138655.1", "bioproject": "PRJNA562730", "biosample": "SAMN13287990", "wgs_master": "WTCI00000000.1", "refseq_category": "na", "taxid": "2099677", "species_taxid": "2099677", "organism_name": "Desulfuromonadaceae bacterium", "infraspecific_name": "", "isolate": "GLR9", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/05/21", "asm_name": "ASM1313865v1", "submitter": "GNS Science", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/013/138/655/GCA_013138655.1_ASM1313865v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-05-21", "dateModified": "2020-05-21", "datePublished": "2020-05-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Desulfuromonadaceae bacterium" ], "sample_taxid": [ "2099677" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "New Zealand: Hikurangi Margin" ], "sample_host_location_id": [], "data_size": "0.705 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 91.29, "contamination": 0.46, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2453331", "Number of Sequences": "364", "Longest Sequences (bp)": "31471", "N50 (bp)": "8159", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "52.3", "Number of CDSs": "1975", "Average Protein Length": "299.8", "Coding Ratio (%)": "72.4", "Number of rRNAs": "0", "Number of tRNAs": "33", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Malonomonas rubra", "strain": "strain=DSM 5091", "accession": "GCA_900142125.1", "taxid": 57040, "species_taxid": 57040, "relation_to_type": "type", "validated": true, "ani": 77.574, "matched_fragments": 161, "total_fragments": 633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelobacter seleniigenes", "strain": "strain=DSM 18267", "accession": "GCA_000711225.1", "taxid": 407188, "species_taxid": 407188, "relation_to_type": "type", "validated": true, "ani": 76.9609, "matched_fragments": 107, "total_fragments": 633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geothermobacter ehrlichii", "strain": "strain=SS015", "accession": "GCA_008124615.1", "taxid": 213224, "species_taxid": 213224, "relation_to_type": "type", "validated": true, "ani": 76.8387, "matched_fragments": 61, "total_fragments": 633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelovirga terrestris", "strain": "strain=M08fum", "accession": "GCA_014773365.1", "taxid": 2771352, "species_taxid": 2771352, "relation_to_type": "type", "validated": true, "ani": 76.6771, "matched_fragments": 71, "total_fragments": 633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geopsychrobacter electrodiphilus", "strain": "strain=DSM 16401", "accession": "GCA_000384395.1", "taxid": 225196, "species_taxid": 225196, "relation_to_type": "type", "validated": true, "ani": 76.6602, "matched_fragments": 64, "total_fragments": 633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Geothermobacter hydrogeniphilus", "strain": "strain=EPR-M", "accession": "GCA_002093115.1", "taxid": 1969733, "species_taxid": 1969733, "relation_to_type": "type", "validated": true, "ani": 76.6005, "matched_fragments": 59, "total_fragments": 633, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfuromonas versatilis", "strain": "strain=NIT-T3", "accession": "GCA_019704135.1", "taxid": 2802975, "species_taxid": 2802975, "relation_to_type": "type", "validated": true, "ani": 76.5929, "matched_fragments": 65, "total_fragments": 633, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 91.29, "contamination": 0.46, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_013138655.1", "gtdb_species": "s__Malonomonas sp013138655", "ani": 100.0, "matched_fragments": 624, "total_fragments": 633, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Desulfuromonadales;f__Geopsychrobacteraceae;g__Malonomonas", "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": "conclusive" }, { "accession": "GCA_015222355.1", "gtdb_species": "s__Malonomonas sp015222355", "ani": 93.6243, "matched_fragments": 324, "total_fragments": 633, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Desulfuromonadales;f__Geopsychrobacteraceae;g__Malonomonas", "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_013152145.1", "gtdb_species": "s__Malonomonas sp013152145", "ani": 78.0034, "matched_fragments": 164, "total_fragments": 633, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Desulfuromonadales;f__Geopsychrobacteraceae;g__Malonomonas", "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_900142125.1", "gtdb_species": "s__Malonomonas rubra", "ani": 77.574, "matched_fragments": 161, "total_fragments": 633, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Desulfuromonadales;f__Geopsychrobacteraceae;g__Malonomonas", "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_003247215.1", "gtdb_species": "s__Malonomonas rubra_A", "ani": 77.341, "matched_fragments": 146, "total_fragments": 633, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Desulfuromonadales;f__Geopsychrobacteraceae;g__Malonomonas", "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_002869665.1", "gtdb_species": "s__BM522 sp002869665", "ani": 77.015, "matched_fragments": 86, "total_fragments": 633, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Desulfuromonadales;f__Geopsychrobacteraceae;g__BM522", "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_000711225.1", "gtdb_species": "s__Seleniibacterium seleniigenes", "ani": 76.9395, "matched_fragments": 108, "total_fragments": 633, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Desulfuromonadales;f__Geopsychrobacteraceae;g__Seleniibacterium", "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_016931615.1", "gtdb_species": "s__BM522 sp016931615", "ani": 76.5728, "matched_fragments": 83, "total_fragments": 633, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfuromonadia;o__Desulfuromonadales;f__Geopsychrobacteraceae;g__BM522", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.272, "cell_length": 0.199, "doubling_h": null, "growth_tmp": 27.947, "optimum_tmp": 23.5, "optimum_ph": 7.316, "genome_size": 3820814.513, "gc_content": 57.26, "coding_genes": 3308.708, "rRNA16S_genes": 3.0, "tRNA_genes": 53.75, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.833, "range_salinity": 0.0, "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": 0.875, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.125, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Desulfobacterota", "c__Desulfuromonadia", "o__Desulfuromonadales", "f__Geopsychrobacteraceae", "g__Malonomonas", "s__Malonomonas sp013138655" ], "_genome_taxon": [ "Desulfuromonadaceae", "bacterium", "d__Bacteria", "p__Desulfobacterota", "c__Desulfuromonadia", "o__Desulfuromonadales", "f__Geopsychrobacteraceae", "g__Malonomonas", "s__Malonomonas sp013138655", "Bacteria", "Desulfobacterota", "Desulfuromonadia", "Desulfuromonadales", "Geopsychrobacteraceae", "Malonomonas", "Malonomonas", "sp013138655" ], "_meo": [ { "id": "MEO_0000040", "label": "marine sediment" }, { "id": "MEO_0001170", "label": "cold seep" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }