{ "type": "genome", "identifier": "GCA_018897745.1", "organism": "Pseudomonadota bacterium", "title": "Pseudomonadota bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Department of Ecology and Genetics, Limnology and Science for Life Laboratory, Uppsala University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_018897745.1", "bioproject": "PRJNA627556", "biosample": "SAMN19297559", "wgs_master": "JAHIKE000000000.1", "refseq_category": "na", "taxid": "1977087", "species_taxid": "1977087", "organism_name": "Pseudomonadota bacterium", "infraspecific_name": "", "isolate": "KR13_N1.mb.36", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/06/16", "asm_name": "ASM1889774v1", "submitter": "Department of Ecology and Genetics, Limnology and Science for Life Laboratory, Uppsala University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/018/897/745/GCA_018897745.1_ASM1889774v1", "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": "2021-06-16", "dateModified": "2021-06-16", "datePublished": "2021-06-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonadota bacterium" ], "sample_taxid": [ "1977087" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Finland" ], "sample_host_location_id": [], "data_size": "0.777 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 75.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2782076", "Number of Sequences": "272", "Longest Sequences (bp)": "65605", "N50 (bp)": "15415", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.9", "Number of CDSs": "2401", "Average Protein Length": "308.9", "Coding Ratio (%)": "80.0", "Number of rRNAs": "0", "Number of tRNAs": "33", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudodesulfovibrio aespoeensis", "strain": "strain=Aspo-2", "accession": "GCA_000176915.2", "taxid": 182210, "species_taxid": 182210, "relation_to_type": "type", "validated": true, "ani": 99.9914, "matched_fragments": 786, "total_fragments": 786, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudodesulfovibrio alkaliphilus", "strain": "strain=F-1", "accession": "GCA_009729555.1", "taxid": 2661613, "species_taxid": 2661613, "relation_to_type": "type", "validated": true, "ani": 83.7108, "matched_fragments": 615, "total_fragments": 786, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio mercurii", "strain": "strain=ND132", "accession": "GCA_000189295.2", "taxid": 641491, "species_taxid": 641491, "relation_to_type": "type", "validated": true, "ani": 81.5195, "matched_fragments": 538, "total_fragments": 786, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio indicus", "strain": "strain=DSM 101483", "accession": "GCA_004365595.1", "taxid": 1716143, "species_taxid": 1716143, "relation_to_type": "type", "validated": true, "ani": 81.3035, "matched_fragments": 532, "total_fragments": 786, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio indicus", "strain": "strain=J2", "accession": "GCA_001563225.1", "taxid": 1716143, "species_taxid": 1716143, "relation_to_type": "type", "validated": true, "ani": 81.2717, "matched_fragments": 546, "total_fragments": 786, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio hydrargyri", "strain": "strain=BerOc1", "accession": "GCA_001874525.1", "taxid": 2125990, "species_taxid": 2125990, "relation_to_type": "type", "validated": true, "ani": 81.0103, "matched_fragments": 536, "total_fragments": 786, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio cashew", "strain": "strain=SRB007", "accession": "GCA_009762795.1", "taxid": 2678688, "species_taxid": 2678688, "relation_to_type": "type", "validated": true, "ani": 80.0593, "matched_fragments": 470, "total_fragments": 786, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio sulfodismutans", "strain": "strain=DSM 3696", "accession": "GCA_010499425.1", "taxid": 63561, "species_taxid": 63561, "relation_to_type": "type", "validated": true, "ani": 76.8977, "matched_fragments": 174, "total_fragments": 786, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio sulfodismutans", "strain": "strain=DSM 3696", "accession": "GCA_013376455.1", "taxid": 63561, "species_taxid": 63561, "relation_to_type": "type", "validated": true, "ani": 76.8267, "matched_fragments": 182, "total_fragments": 786, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 75.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000176915.2", "gtdb_species": "s__Pseudodesulfovibrio aespoeensis", "ani": 99.9914, "matched_fragments": 786, "total_fragments": 786, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Pseudodesulfovibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.94", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.98", "num_clustered_genomes": 8, "status": "conclusive" }, { "accession": "GCF_009729555.1", "gtdb_species": "s__Pseudodesulfovibrio sp009729555", "ani": 83.6948, "matched_fragments": 615, "total_fragments": 786, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Pseudodesulfovibrio", "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_000189295.2", "gtdb_species": "s__Pseudodesulfovibrio mercurii", "ani": 81.5246, "matched_fragments": 537, "total_fragments": 786, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota_I;c__Desulfovibrionia;o__Desulfovibrionales;f__Desulfovibrionaceae;g__Pseudodesulfovibrio", "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_001563225.1", 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"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__Desulfobacterota", "c__Desulfovibrionia", "o__Desulfovibrionales", "f__Desulfovibrionaceae", "g__Pseudodesulfovibrio", "s__Pseudodesulfovibrio aespoeensis" ], "_genome_taxon": [ "Pseudomonadota", "bacterium", "d__Bacteria", 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