{ "type": "genome", "identifier": "GCA_023401415.1", "organism": "Pseudomonadota bacterium", "title": "Pseudomonadota bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "LNCC", "publication": [ {} ], "properties": { "assembly_accession": "GCA_023401415.1", "bioproject": "PRJNA682348", "biosample": "SAMN17044964", "wgs_master": "JAEXEA000000000.1", "refseq_category": "na", "taxid": "1977087", "species_taxid": "1977087", "organism_name": "Pseudomonadota bacterium", "infraspecific_name": "", "isolate": "OH_HBB_183", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/05/17", "asm_name": "ASM2340141v1", "submitter": "LNCC", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/023/401/415/GCA_023401415.1_ASM2340141v1", "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": "2022-05-17", "dateModified": "2022-05-17", "datePublished": "2022-05-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonadota bacterium" ], "sample_taxid": [ "1977087" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Brazil: Belem" ], "sample_host_location_id": [], "data_size": "0.652 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 83.33, "contamination": 2.08, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2306651", "Number of Sequences": "84", "Longest Sequences (bp)": "150453", "N50 (bp)": "47884", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "36.8", "Number of CDSs": "1980", "Average Protein Length": "325.6", "Coding Ratio (%)": "83.9", "Number of rRNAs": "1", "Number of tRNAs": "56", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Succinivibrio dextrinosolvens", "strain": "strain=DSM 3072", "accession": "GCA_900167015.1", "taxid": 83771, "species_taxid": 83771, "relation_to_type": "type", "validated": true, "ani": 78.5284, "matched_fragments": 214, "total_fragments": 725, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerobiospirillum thomasii", "strain": "strain=NCTC12467", "accession": "GCA_900445255.1", "taxid": 179995, "species_taxid": 179995, "relation_to_type": "type", "validated": true, "ani": 76.8107, "matched_fragments": 63, "total_fragments": 725, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerobiospirillum succiniciproducens", "strain": "strain=DSM 6400", "accession": "GCA_000482845.1", "taxid": 13335, "species_taxid": 13335, "relation_to_type": "type", "validated": true, "ani": 76.4652, "matched_fragments": 56, "total_fragments": 725, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 83.33, "contamination": 2.08, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_000431835.1", "gtdb_species": "s__Succinivibrio sp000431835", "ani": 98.5103, "matched_fragments": 621, "total_fragments": 725, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Succinivibrionaceae;g__Succinivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.12", "min_intra_species_ani": "95.78", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.82", "num_clustered_genomes": 11, "status": "conclusive" }, { "accession": "GCA_900315395.1", "gtdb_species": "s__Succinivibrio sp900315395", "ani": 89.9712, "matched_fragments": 570, "total_fragments": 725, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Succinivibrionaceae;g__Succinivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.82", "min_intra_species_ani": "99.64", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_002449335.1", "gtdb_species": "s__Succinivibrio sp002449335", "ani": 89.9156, "matched_fragments": 598, "total_fragments": 725, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Succinivibrionaceae;g__Succinivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.89", "min_intra_species_ani": "95.86", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900316375.1", "gtdb_species": "s__Succinivibrio sp900316375", "ani": 79.6689, "matched_fragments": 269, "total_fragments": 725, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Succinivibrionaceae;g__Succinivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_012519775.1", "gtdb_species": "s__Succinivibrio sp012519775", "ani": 79.5059, "matched_fragments": 240, "total_fragments": 725, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Succinivibrionaceae;g__Succinivibrio", "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_004556245.1", "gtdb_species": "s__Succinivibrio hippei_B", "ani": 79.1882, "matched_fragments": 167, "total_fragments": 725, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Succinivibrionaceae;g__Succinivibrio", "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_902785325.1", "gtdb_species": "s__Succinivibrio sp003456415", "ani": 79.1836, "matched_fragments": 269, "total_fragments": 725, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Succinivibrionaceae;g__Succinivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.60", "min_intra_species_ani": "98.18", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.86", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_900317105.1", "gtdb_species": "s__Succinivibrio sp900317105", "ani": 78.514, "matched_fragments": 167, "total_fragments": 725, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Succinivibrionaceae;g__Succinivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.54", "min_intra_species_ani": "96.63", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.79", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_011065405.1", "gtdb_species": "s__Succinivibrio dextrinosolvens_A", "ani": 78.3391, "matched_fragments": 198, "total_fragments": 725, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Succinivibrionaceae;g__Succinivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.30", "min_intra_species_ani": "97.32", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.84", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_017959135.1", "gtdb_species": "s__Succinivibrio sp017959135", "ani": 78.1779, "matched_fragments": 141, "total_fragments": 725, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Succinivibrionaceae;g__Succinivibrio", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Enterobacterales", "f__Succinivibrionaceae", "g__Succinivibrio", "s__Succinivibrio sp000431835" ], "_genome_taxon": [ "Pseudomonadota", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Enterobacterales", "f__Succinivibrionaceae", "g__Succinivibrio", "s__Succinivibrio sp000431835", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Enterobacterales", "Succinivibrionaceae", "Succinivibrio", "Succinivibrio", "sp000431835" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }