{ "type": "genome", "identifier": "GCA_026399755.1", "organism": "Pseudomonadota bacterium", "title": "Pseudomonadota bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Jill Banfield's Lab at Berkeley", "publication": [ {} ], "properties": { "assembly_accession": "GCA_026399755.1", "bioproject": "PRJNA852163", "biosample": "SAMN30026395", "wgs_master": "JAPLQI000000000.1", "refseq_category": "na", "taxid": "1977087", "species_taxid": "1977087", "organism_name": "Pseudomonadota bacterium", "infraspecific_name": "", "isolate": "LacPavin_0419_WC53_MAG_48_21", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/11/24", "asm_name": "ASM2639975v1", "submitter": "Jill Banfield's Lab at Berkeley", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/026/399/755/GCA_026399755.1_ASM2639975v1", "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": "2022-11-24", "dateModified": "2022-11-24", "datePublished": "2022-11-24", "_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": [ "France: Besse-et-Saint-Anastaise, Lac Pavin" ], "sample_host_location_id": [], "data_size": "1.414 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4946219", "Number of Sequences": "145", "Longest Sequences (bp)": "157491", "N50 (bp)": "61939", "Gap Ratio (%)": "0.002527", "GCcontent (%)": "48.4", "Number of CDSs": "4410", "Average Protein Length": "310.9", "Coding Ratio (%)": "83.2", "Number of rRNAs": "2", "Number of tRNAs": "68", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Iodobacter fluviatilis", "strain": "strain=DSM 3764", "accession": "GCA_004346505.1", "taxid": 537, "species_taxid": 537, "relation_to_type": "type", "validated": true, "ani": 85.5526, "matched_fragments": 1142, "total_fragments": 1575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Iodobacter fluviatilis", "strain": "strain=NCTC11159", "accession": "GCA_900451195.1", "taxid": 537, "species_taxid": 537, "relation_to_type": "type", "validated": true, "ani": 85.4738, "matched_fragments": 1165, "total_fragments": 1575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Iodobacter ciconiae", "strain": "strain=H11R3", "accession": "GCA_003952345.1", "taxid": 2496266, "species_taxid": 2496266, "relation_to_type": "type", "validated": true, "ani": 83.3158, "matched_fragments": 895, "total_fragments": 1575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deefgea chitinilytica", "strain": "strain=LMG 24817", "accession": "GCA_016881405.1", "taxid": 570276, "species_taxid": 570276, "relation_to_type": "type", "validated": true, "ani": 76.8109, "matched_fragments": 148, "total_fragments": 1575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinibacter bivalviorum", "strain": "strain=2T18", "accession": "GCA_013403565.1", "taxid": 2739434, "species_taxid": 2739434, "relation_to_type": "type", "validated": true, "ani": 76.7539, "matched_fragments": 163, "total_fragments": 1575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deefgea rivuli", "strain": "strain=DSM 18356", "accession": "GCA_000620145.1", "taxid": 400948, "species_taxid": 400948, "relation_to_type": "type", "validated": true, "ani": 76.7101, "matched_fragments": 189, "total_fragments": 1575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinibacter tainanensis", "strain": "strain=DSM 15459", "accession": "GCA_000429785.1", "taxid": 230667, "species_taxid": 230667, "relation_to_type": "type", "validated": true, "ani": 76.4795, "matched_fragments": 154, "total_fragments": 1575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinilyticum aquatile", "strain": "strain=DSM 21506", "accession": "GCA_000430805.1", "taxid": 362520, "species_taxid": 362520, "relation_to_type": "type", "validated": true, "ani": 76.2658, "matched_fragments": 75, "total_fragments": 1575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Andreprevotia chitinilytica", "strain": "strain=DSM 18519", "accession": "GCA_000711875.1", "taxid": 396808, "species_taxid": 396808, "relation_to_type": "type", "validated": true, "ani": 76.1199, "matched_fragments": 97, "total_fragments": 1575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Silvimonas amylolytica", "strain": "strain=CGMCC 1.8860", "accession": "GCA_014645555.1", "taxid": 449663, "species_taxid": 449663, "relation_to_type": "type", "validated": true, "ani": 76.1106, "matched_fragments": 94, "total_fragments": 1575, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Silvimonas iriomotensis", "strain": "strain=CGMCC 1.8859", "accession": "GCA_014645535.1", "taxid": 449662, "species_taxid": 449662, "relation_to_type": "type", "validated": true, "ani": 76.0045, "matched_fragments": 93, "total_fragments": 1575, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000969645.2", "gtdb_species": "s__Iodobacter sp000969645", "ani": 87.0863, "matched_fragments": 1181, "total_fragments": 1575, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Iodobacter", "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_002735645.1", "gtdb_species": "s__Iodobacter sp002735645", "ani": 85.9613, "matched_fragments": 1110, "total_fragments": 1575, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Iodobacter", "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_011601265.1", "gtdb_species": "s__Iodobacter sp011601265", "ani": 85.5064, "matched_fragments": 1146, "total_fragments": 1575, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Iodobacter", "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_900451195.1", "gtdb_species": "s__Iodobacter fluviatilis", "ani": 85.469, "matched_fragments": 1165, "total_fragments": 1575, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Iodobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004194535.1", "gtdb_species": "s__Iodobacter fluviatilis_A", "ani": 84.817, "matched_fragments": 946, "total_fragments": 1575, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Iodobacter", "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_003952345.1", "gtdb_species": "s__Iodobacter sp003952345", "ani": 83.337, "matched_fragments": 892, "total_fragments": 1575, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Iodobacter", "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__Burkholderiales", "f__Chitinibacteraceae", "g__Iodobacter", "s__Iodobacter sp026399755" ], "_genome_taxon": [ "Pseudomonadota", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Chitinibacteraceae", "g__Iodobacter", "s__Iodobacter sp026399755", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Burkholderiales", "Chitinibacteraceae", "Iodobacter", "Iodobacter", "sp026399755" ], "_meo": [ { "id": "MEO_0000038", "label": "freshwater" }, { "id": "MEO_0000024", "label": "lake" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }