{ "type": "genome", "identifier": "GCA_001603955.1", "organism": "Syntrophobacterales bacterium Delta_02", "title": "Syntrophobacterales bacterium Delta_02", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "University of Queensland", "publication": [ {} ], "properties": { "assembly_accession": "GCA_001603955.1", "bioproject": "PRJNA284316", "biosample": "SAMN03837531", "wgs_master": "LVAA00000000.1", "refseq_category": "na", "taxid": "1674896", "species_taxid": "1674896", "organism_name": "Syntrophobacterales bacterium Delta_02", "infraspecific_name": "", "isolate": "Delta_02", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/03/30", "asm_name": "ASM160395v1", "submitter": "University of Queensland", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/001/603/955/GCA_001603955.1_ASM160395v1", "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": "2016-03-30", "dateModified": "2016-03-30", "datePublished": "2016-03-30", "_annotation": { "sample_count": 1, "sample_organism": [ "Syntrophobacterales bacterium Delta_02" ], "sample_taxid": [ "1674896" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Australia" ], "sample_host_location_id": [], "data_size": "1.152 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 99.24, "contamination": 4.92, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4028425", "Number of Sequences": "285", "Longest Sequences (bp)": "180238", "N50 (bp)": "37923", "Gap Ratio (%)": "0.000348", "GCcontent (%)": "56.8", "Number of CDSs": "3611", "Average Protein Length": "310.8", "Coding Ratio (%)": "83.6", "Number of rRNAs": "0", "Number of tRNAs": "45", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Syntrophorhabdus aromaticivorans", "strain": "strain=UI", "accession": "GCA_000512235.1", "taxid": 328301, "species_taxid": 328301, "relation_to_type": "type", "validated": true, "ani": 75.938, "matched_fragments": 60, "total_fragments": 1194, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.24, "contamination": 4.92, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_001603955.1", "gtdb_species": "s__Delta-02 sp001603955", "ani": 100.0, "matched_fragments": 1188, "total_fragments": 1194, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_G;c__Syntrophorhabdia;o__Syntrophorhabdales;f__Syntrophorhabdaceae;g__Delta-02", "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_002305765.1", "gtdb_species": "s__Delta-02 sp002305765", "ani": 87.1936, "matched_fragments": 843, "total_fragments": 1194, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_G;c__Syntrophorhabdia;o__Syntrophorhabdales;f__Syntrophorhabdaceae;g__Delta-02", "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_002067235.1", "gtdb_species": "s__Delta-02 sp002067235", "ani": 86.7868, "matched_fragments": 764, "total_fragments": 1194, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_G;c__Syntrophorhabdia;o__Syntrophorhabdales;f__Syntrophorhabdaceae;g__Delta-02", "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_012719415.1", "gtdb_species": "s__Delta-02 sp012719415", "ani": 86.6099, "matched_fragments": 764, "total_fragments": 1194, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_G;c__Syntrophorhabdia;o__Syntrophorhabdales;f__Syntrophorhabdaceae;g__Delta-02", "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_002067555.1", "gtdb_species": "s__Delta-02 sp002067555", "ani": 85.7885, "matched_fragments": 395, "total_fragments": 1194, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_G;c__Syntrophorhabdia;o__Syntrophorhabdales;f__Syntrophorhabdaceae;g__Delta-02", "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_002418985.1", "gtdb_species": "s__Delta-02 sp002418985", "ani": 79.3991, "matched_fragments": 470, "total_fragments": 1194, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_G;c__Syntrophorhabdia;o__Syntrophorhabdales;f__Syntrophorhabdaceae;g__Delta-02", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.31", "min_intra_species_ani": "98.97", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.75", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_002412715.1", "gtdb_species": "s__Delta-02 sp002412715", "ani": 79.3631, "matched_fragments": 483, "total_fragments": 1194, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_G;c__Syntrophorhabdia;o__Syntrophorhabdales;f__Syntrophorhabdaceae;g__Delta-02", "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": 0.013, "cell_length": 0.312, "doubling_h": 1.711, "growth_tmp": 42.052, "optimum_tmp": 44.02, "optimum_ph": 7.091, "genome_size": 3956583.239, "gc_content": 52.782, "coding_genes": 3862.0, "rRNA16S_genes": 1.25, "tRNA_genes": 48.75, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.25, "range_salinity": null, "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": 0.5, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.5, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Desulfobacterota_G", "c__Syntrophorhabdia", "o__Syntrophorhabdales", "f__Syntrophorhabdaceae", "g__Delta-02", "s__Delta-02 sp001603955" ], "_genome_taxon": [ "Syntrophobacterales", "bacterium", "Delta_02", "d__Bacteria", "p__Desulfobacterota_G", "c__Syntrophorhabdia", "o__Syntrophorhabdales", "f__Syntrophorhabdaceae", "g__Delta-02", "s__Delta-02 sp001603955", "Bacteria", "Desulfobacterota", "G", "Syntrophorhabdia", "Syntrophorhabdales", "Syntrophorhabdaceae", "Delta-02", "Delta-02", "sp001603955" ], "_meo": [ { "id": "MEO_0001192", "label": "anaerobic digester" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }