{ "type": "genome", "identifier": "GCA_023433775.1", "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_023433775.1", "bioproject": "PRJNA682348", "biosample": "SAMN17027554", "wgs_master": "JAEYTY000000000.1", "refseq_category": "na", "taxid": "1977087", "species_taxid": "1977087", "organism_name": "Pseudomonadota bacterium", "infraspecific_name": "", "isolate": "OH_CBlB_149", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/05/17", "asm_name": "ASM2343377v1", "submitter": "LNCC", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/023/433/775/GCA_023433775.1_ASM2343377v1", "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": [ "Bos taurus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Brazil: Blumenau" ], "sample_host_location_id": [], "data_size": "0.920 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 99.07, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3269048", "Number of Sequences": "169", "Longest Sequences (bp)": "86422", "N50 (bp)": "33987", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "61.5", "Number of CDSs": "3096", "Average Protein Length": "301.2", "Coding Ratio (%)": "85.6", "Number of rRNAs": "0", "Number of tRNAs": "42", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Devosia elaeis", "strain": "strain=S37", "accession": "GCA_001650025.1", "taxid": 1770058, "species_taxid": 1770058, "relation_to_type": "type", "validated": true, "ani": 81.4323, "matched_fragments": 640, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia salina", "strain": "strain=SCS-3", "accession": "GCA_019504385.1", "taxid": 2860336, "species_taxid": 2860336, "relation_to_type": "type", "validated": true, "ani": 81.2713, "matched_fragments": 645, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia faecipullorum", "strain": "strain=CC-YST696", "accession": "GCA_015158295.1", "taxid": 2755039, "species_taxid": 2755039, "relation_to_type": "type", "validated": true, "ani": 80.9627, "matched_fragments": 551, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia equisanguinis", "strain": "strain=CIP 111628", "accession": "GCA_900631955.1", "taxid": 2490941, "species_taxid": 2490941, "relation_to_type": "type", "validated": true, "ani": 80.9123, "matched_fragments": 626, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia sediminis", "strain": "strain=MSA67", "accession": "GCA_016411825.1", "taxid": 2798801, "species_taxid": 2798801, "relation_to_type": "type", "validated": true, "ani": 80.8925, "matched_fragments": 626, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia indica", "strain": "strain=IO390501", "accession": "GCA_003056405.1", "taxid": 2079253, "species_taxid": 2079253, "relation_to_type": "type", "validated": true, "ani": 80.7884, "matched_fragments": 601, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia chinhatensis", "strain": "strain=IPL18", "accession": "GCA_000969445.1", "taxid": 429727, "species_taxid": 429727, "relation_to_type": "type", "validated": true, "ani": 80.5482, "matched_fragments": 577, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia marina", "strain": "strain=L53-10-65", "accession": "GCA_009758415.1", "taxid": 2683198, "species_taxid": 2683198, "relation_to_type": "type", "validated": true, "ani": 80.5433, "matched_fragments": 555, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia beringensis", "strain": "strain=S02", "accession": "GCA_014926585.1", "taxid": 2657486, "species_taxid": 2657486, "relation_to_type": "type", "validated": true, "ani": 80.4736, "matched_fragments": 583, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia riboflavina", "strain": "strain=IFO13584", "accession": "GCA_000743575.1", "taxid": 46914, "species_taxid": 46914, "relation_to_type": "type", "validated": true, "ani": 80.2946, "matched_fragments": 576, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia lucknowensis", "strain": "strain=L15", "accession": "GCA_900177655.1", "taxid": 1096929, "species_taxid": 1096929, "relation_to_type": "type", "validated": true, "ani": 80.2913, "matched_fragments": 564, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia subaequoris", "strain": "strain=HST3-14", "accession": "GCA_024158985.1", "taxid": 395930, "species_taxid": 395930, "relation_to_type": "type", "validated": true, "ani": 80.0861, "matched_fragments": 553, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia rhizoryzae", "strain": "strain=LEGU1", "accession": "GCA_016698665.1", "taxid": 2774137, "species_taxid": 2774137, "relation_to_type": "type", "validated": true, "ani": 80.0344, "matched_fragments": 529, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia aurantiaca", "strain": "strain=H239", "accession": "GCA_011058215.1", "taxid": 2714858, "species_taxid": 2714858, "relation_to_type": "type", "validated": true, "ani": 79.9945, "matched_fragments": 536, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia oryziradicis", "strain": "strain=G19", "accession": "GCA_016698645.1", "taxid": 2801335, "species_taxid": 2801335, "relation_to_type": "type", "validated": true, "ani": 79.9848, "matched_fragments": 567, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia soli", "strain": "strain=GH2-10", "accession": "GCA_000970455.1", "taxid": 361041, "species_taxid": 361041, "relation_to_type": "type", "validated": true, "ani": 79.7313, "matched_fragments": 492, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia naphthalenivorans", "strain": "strain=CM5-1", "accession": "GCA_003056355.1", "taxid": 2082392, "species_taxid": 2082392, "relation_to_type": "type", "validated": true, "ani": 79.3815, "matched_fragments": 490, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Devosia submarina", "strain": "strain=JCM 18935", "accession": "GCA_003056345.1", "taxid": 1173082, "species_taxid": 1173082, "relation_to_type": "type", "validated": true, "ani": 79.264, "matched_fragments": 418, "total_fragments": 1006, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.07, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001650025.1", "gtdb_species": "s__Devosia elaeis", "ani": 81.4391, "matched_fragments": 639, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_015158295.1", "gtdb_species": "s__Devosia sp015158295", "ani": 80.9279, "matched_fragments": 554, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_900631955.1", "gtdb_species": "s__Devosia sp001899045", "ani": 80.9255, "matched_fragments": 626, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.09", "min_intra_species_ani": "98.08", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_016411825.1", "gtdb_species": "s__Devosia sp016411825", "ani": 80.9055, "matched_fragments": 624, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_003056405.1", "gtdb_species": "s__Devosia indica", "ani": 80.8128, "matched_fragments": 598, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_001427605.1", "gtdb_species": "s__Devosia sp001427605", "ani": 80.6154, "matched_fragments": 625, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_001426345.1", "gtdb_species": "s__Devosia sp001426345", "ani": 80.5873, "matched_fragments": 601, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_000969445.1", "gtdb_species": "s__Devosia chinhatensis", "ani": 80.5446, "matched_fragments": 577, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_009758415.1", "gtdb_species": "s__Devosia marina", "ani": 80.5173, "matched_fragments": 557, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.05", "min_intra_species_ani": "97.05", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018828145.1", "gtdb_species": "s__Devosia sp018828145", "ani": 80.4833, "matched_fragments": 624, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.98", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_014860165.1", "gtdb_species": "s__Devosia sp014860165", "ani": 80.3807, "matched_fragments": 588, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_900177655.1", "gtdb_species": "s__Devosia lucknowensis", "ani": 80.302, "matched_fragments": 563, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_000743575.1", "gtdb_species": "s__Devosia riboflavina", "ani": 80.2904, "matched_fragments": 576, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_000735585.1", "gtdb_species": "s__Devosia sp000735585", "ani": 80.2265, "matched_fragments": 556, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_001427875.1", "gtdb_species": "s__Devosia sp001427875", "ani": 80.2197, "matched_fragments": 586, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_016698665.1", "gtdb_species": "s__Devosia sp016698665", "ani": 80.0295, "matched_fragments": 529, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_016698645.1", "gtdb_species": "s__Devosia sp016698645", "ani": 80.0133, "matched_fragments": 564, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_001425445.1", "gtdb_species": "s__Devosia sp001425445", "ani": 79.7911, "matched_fragments": 526, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.74", "min_intra_species_ani": "96.74", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000970455.1", "gtdb_species": "s__Devosia soli", "ani": 79.7483, "matched_fragments": 490, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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_014837245.1", "gtdb_species": "s__Devosia sp014837245", "ani": 79.5311, "matched_fragments": 487, "total_fragments": 1006, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Devosiaceae;g__Devosia", "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__Alphaproteobacteria", "o__Rhizobiales", "f__Devosiaceae", "g__Devosia", "s__Devosia sp023433775" ], "_genome_taxon": [ "Pseudomonadota", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Rhizobiales", "f__Devosiaceae", "g__Devosia", "s__Devosia sp023433775", "Bacteria", "Pseudomonadota", "Alphaproteobacteria", "Rhizobiales", "Devosiaceae", "Devosia", "Devosia", "sp023433775" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }