{ "type": "genome", "identifier": "GCA_023418895.1", "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_023418895.1", "bioproject": "PRJNA682348", "biosample": "SAMN17040069", "wgs_master": "JAEZYT000000000.1", "refseq_category": "na", "taxid": "1977087", "species_taxid": "1977087", "organism_name": "Pseudomonadota bacterium", "infraspecific_name": "", "isolate": "OH_PFB_249", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/05/17", "asm_name": "ASM2341889v1", "submitter": "LNCC", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/023/418/895/GCA_023418895.1_ASM2341889v1", "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": [ "Gallus gallus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Brazil: Fortaleza" ], "sample_host_location_id": [], "data_size": "0.589 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 25.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2142359", "Number of Sequences": "450", "Longest Sequences (bp)": "18041", "N50 (bp)": "5010", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.4", "Number of CDSs": "1678", "Average Protein Length": "292.3", "Coding Ratio (%)": "68.7", "Number of rRNAs": "0", "Number of tRNAs": "33", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoxanthomonas mexicana", "strain": "strain=DSM 17121", "accession": "GCA_010093385.1", "taxid": 128785, "species_taxid": 128785, "relation_to_type": "type", "validated": true, "ani": 97.0538, "matched_fragments": 460, "total_fragments": 493, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudoxanthomonas japonensis", "strain": "strain=DSM 17109", "accession": "GCA_010093445.1", "taxid": 69284, "species_taxid": 69284, "relation_to_type": "type", "validated": true, "ani": 87.3229, "matched_fragments": 442, "total_fragments": 493, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoxanthomonas beigongshangi", "strain": "strain=REN9", "accession": "GCA_016820515.1", "taxid": 2782537, "species_taxid": 2782537, "relation_to_type": "type", "validated": true, "ani": 82.9639, "matched_fragments": 378, "total_fragments": 493, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoxanthomonas wuyuanensis", "strain": "strain=CGMCC 1.10978", "accession": "GCA_900215535.1", "taxid": 1073196, "species_taxid": 1073196, "relation_to_type": "type", "validated": true, "ani": 82.4473, "matched_fragments": 372, "total_fragments": 493, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoxanthomonas wuyuanensis", "strain": "strain=DSM 100640", "accession": "GCA_010093325.1", "taxid": 1073196, "species_taxid": 1073196, "relation_to_type": "type", "validated": true, "ani": 82.4463, "matched_fragments": 371, "total_fragments": 493, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoxanthomonas sangjuensis", "strain": "strain=DSM 28345", "accession": "GCA_010211755.1", "taxid": 1503750, "species_taxid": 1503750, "relation_to_type": "type", "validated": true, "ani": 81.7567, "matched_fragments": 330, "total_fragments": 493, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoxanthomonas composti", "strain": "strain=GSS15", "accession": "GCA_004122095.1", "taxid": 2137479, "species_taxid": 2137479, "relation_to_type": "type", "validated": true, "ani": 80.9825, "matched_fragments": 324, "total_fragments": 493, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter silvisoli", "strain": "strain=zong2l5", "accession": "GCA_003382365.1", "taxid": 2293254, "species_taxid": 2293254, "relation_to_type": "type", "validated": true, "ani": 80.4461, "matched_fragments": 308, "total_fragments": 493, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 25.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_010093385.1", "gtdb_species": "s__Pseudoxanthomonas_A mexicana", "ani": 97.0538, "matched_fragments": 460, "total_fragments": 493, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Pseudoxanthomonas_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.97", "min_intra_species_ani": "96.88", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_001427585.1", "gtdb_species": "s__Pseudoxanthomonas_A sp001427585", "ani": 87.7049, "matched_fragments": 449, "total_fragments": 493, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Pseudoxanthomonas_A", "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_900104255.1", "gtdb_species": "s__Pseudoxanthomonas_A sp900104255", "ani": 87.6879, "matched_fragments": 446, "total_fragments": 493, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Pseudoxanthomonas_A", "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_001427635.1", "gtdb_species": "s__Pseudoxanthomonas_A sp001427635", "ani": 87.4995, "matched_fragments": 438, "total_fragments": 493, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Pseudoxanthomonas_A", "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_010093445.1", "gtdb_species": "s__Pseudoxanthomonas_A japonensis", "ani": 87.3229, "matched_fragments": 442, "total_fragments": 493, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Pseudoxanthomonas_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.78", "min_intra_species_ani": "96.68", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.68", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_002863005.1", "gtdb_species": "s__Pseudoxanthomonas_A sp002863005", "ani": 87.1721, "matched_fragments": 429, "total_fragments": 493, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Pseudoxanthomonas_A", "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_006716465.1", "gtdb_species": "s__Pseudoxanthomonas_A sp006716465", "ani": 87.0109, "matched_fragments": 452, "total_fragments": 493, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Pseudoxanthomonas_A", "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_014851815.1", "gtdb_species": "s__Pseudoxanthomonas_A sp014851815", "ani": 86.7732, "matched_fragments": 444, "total_fragments": 493, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Pseudoxanthomonas_A", "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_014852005.1", "gtdb_species": "s__Pseudoxanthomonas_A sp014852005", "ani": 86.633, "matched_fragments": 449, "total_fragments": 493, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Xanthomonadaceae;g__Pseudoxanthomonas_A", "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__Xanthomonadales", "f__Xanthomonadaceae", "g__Pseudoxanthomonas_A", "s__Pseudoxanthomonas_A mexicana" ], "_genome_taxon": [ "Pseudomonadota", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Xanthomonadales", "f__Xanthomonadaceae", "g__Pseudoxanthomonas_A", "s__Pseudoxanthomonas_A mexicana", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Xanthomonadales", "Xanthomonadaceae", "Pseudoxanthomonas", "A", "Pseudoxanthomonas", "A", "mexicana" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }