{ "type": "genome", "identifier": "GCA_947484095.1", "organism": "Betaproteobacteria bacterium", "title": "Betaproteobacteria bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "BIOLOGY CENTRE ASCR, V.V.I., INSTITUTE OF HYDROBIO", "publication": [ {} ], "properties": { "assembly_accession": "GCA_947484095.1", "bioproject": "PRJEB35770", "biosample": "SAMEA112176002", "wgs_master": "CANKOQ000000000.1", "refseq_category": "na", "taxid": "1891241", "species_taxid": "1891241", "organism_name": "Betaproteobacteria bacterium", "infraspecific_name": "", "isolate": "RH-9nov16-356", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/12/04", "asm_name": "RH-9nov16-356", "submitter": "BIOLOGY CENTRE ASCR, V.V.I., INSTITUTE OF HYDROBIO", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/947/484/095/GCA_947484095.1_RH-9nov16-356", "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": "2022-12-04", "dateModified": "2022-12-04", "datePublished": "2022-12-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Betaproteobacteria bacterium" ], "sample_taxid": [ "1891241" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Czech Republic" ], "sample_host_location_id": [], "data_size": "0.683 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 47.28, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2427504", "Number of Sequences": "447", "Longest Sequences (bp)": "25160", "N50 (bp)": "5486", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.7", "Number of CDSs": "1977", "Average Protein Length": "295.5", "Coding Ratio (%)": "72.2", "Number of rRNAs": "0", "Number of tRNAs": "22", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thauera linaloolentis", "strain": "strain=47Lol = DSM 12138", "accession": "GCA_000310205.1", "taxid": 76112, "species_taxid": 76112, "relation_to_type": "type", "validated": true, "ani": 76.8762, "matched_fragments": 88, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera chlorobenzoica", "strain": "strain=3CB1", "accession": "GCA_001922305.1", "taxid": 96773, "species_taxid": 96773, "relation_to_type": "type", "validated": true, "ani": 76.813, "matched_fragments": 91, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera chlorobenzoica", "strain": "strain=3CB-1", "accession": "GCA_900108255.1", "taxid": 96773, "species_taxid": 96773, "relation_to_type": "type", "validated": true, "ani": 76.77, "matched_fragments": 89, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera linaloolentis", "strain": "strain=DSM 12138", "accession": "GCA_000621305.1", "taxid": 76112, "species_taxid": 76112, "relation_to_type": "type", "validated": true, "ani": 76.7659, "matched_fragments": 92, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azoarcus rhizosphaerae", "strain": "strain=CC-YHH848", "accession": "GCA_004801305.1", "taxid": 2565932, "species_taxid": 2565932, "relation_to_type": "type", "validated": true, "ani": 76.6631, "matched_fragments": 127, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfurisoma sediminicola", "strain": "strain=BSN1", "accession": "GCA_003865015.1", "taxid": 1381557, "species_taxid": 1381557, "relation_to_type": "type", "validated": true, "ani": 76.6624, "matched_fragments": 110, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfurisoma sediminicola", "strain": "strain=DSM 26916", "accession": "GCA_003663955.1", "taxid": 1381557, "species_taxid": 1381557, "relation_to_type": "type", "validated": true, "ani": 76.64, "matched_fragments": 110, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Noviherbaspirillum aridicola", "strain": "strain=NCCP-691", "accession": "GCA_019656455.1", "taxid": 2849687, "species_taxid": 2849687, "relation_to_type": "type", "validated": true, "ani": 76.455, "matched_fragments": 89, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methyloversatilis discipulorum", "strain": "strain=FAM1", "accession": "GCA_000527135.1", "taxid": 1119528, "species_taxid": 1119528, "relation_to_type": "type", "validated": true, "ani": 76.2736, "matched_fragments": 101, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera butanivorans", "strain": "strain=NBRC 103042", "accession": "GCA_001591165.1", "taxid": 86174, "species_taxid": 86174, "relation_to_type": "type", "validated": true, "ani": 76.2727, "matched_fragments": 120, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera propionica", "strain": "strain=KNDSS-Mac4", "accession": "GCA_002245655.1", "taxid": 2019431, "species_taxid": 2019431, "relation_to_type": "type", "validated": true, "ani": 76.1937, "matched_fragments": 99, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collimonas pratensis", "strain": "strain=Ter91", "accession": "GCA_001584185.1", "taxid": 279113, "species_taxid": 279113, "relation_to_type": "type", "validated": true, "ani": 76.0896, "matched_fragments": 61, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia forsythiae", "strain": "strain=GN2-R2", "accession": "GCA_012849555.1", "taxid": 2728020, "species_taxid": 2728020, "relation_to_type": "type", "validated": true, "ani": 75.9683, "matched_fragments": 115, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Duganella margarita", "strain": "strain=FT109W", "accession": "GCA_009857535.1", "taxid": 2692170, "species_taxid": 2692170, "relation_to_type": "type", "validated": true, "ani": 75.9292, "matched_fragments": 84, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia norwichensis", "strain": "strain=LMG 28164", "accession": "GCA_024753245.1", "taxid": 1442366, "species_taxid": 1442366, "relation_to_type": "type", "validated": true, "ani": 75.9119, "matched_fragments": 88, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Duganella radicis", "strain": "strain=KCTC 22382", "accession": "GCA_009720825.1", "taxid": 551988, "species_taxid": 551988, "relation_to_type": "type", "validated": true, "ani": 75.7753, "matched_fragments": 106, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Duganella dendranthematis", "strain": "strain=AF9R3", "accession": "GCA_012849375.1", "taxid": 2728021, "species_taxid": 2728021, "relation_to_type": "type", "validated": true, "ani": 75.7452, "matched_fragments": 86, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia pinisoli", "strain": "strain=JCM 31316", "accession": "GCA_024753285.1", "taxid": 1772194, "species_taxid": 1772194, "relation_to_type": "type", "validated": true, "ani": 75.7317, "matched_fragments": 75, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collimonas humicola", "strain": "strain=RLT1W51", "accession": "GCA_018304945.1", "taxid": 2825886, "species_taxid": 2825886, "relation_to_type": "type", "validated": true, "ani": 75.7129, "matched_fragments": 69, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Jeongeupia chitinilytica", "strain": "strain=KCTC 23701", "accession": "GCA_014652315.1", "taxid": 1041641, "species_taxid": 1041641, "relation_to_type": "type", "validated": true, "ani": 75.2882, "matched_fragments": 61, "total_fragments": 632, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 47.28, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_903895005.1", "gtdb_species": "s__CAITSH01 sp903895005", "ani": 80.5219, "matched_fragments": 385, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-39;g__CAITSH01", "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_016234705.1", "gtdb_species": "s__2-12-FULL-64-23 sp016234705", "ani": 77.5863, "matched_fragments": 153, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-39;g__2-12-FULL-64-23", "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_014860355.1", "gtdb_species": "s__2-12-FULL-64-23 sp014860355", "ani": 77.1892, "matched_fragments": 150, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-39;g__2-12-FULL-64-23", "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_011526165.1", "gtdb_species": "s__Desulfobacillus sp011526165", "ani": 76.7758, "matched_fragments": 107, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Desulfobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.84", "min_intra_species_ani": "98.84", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.79", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_003242425.1", "gtdb_species": "s__ZC4RG42 sp003242425", "ani": 76.7628, "matched_fragments": 73, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-39;g__ZC4RG42", "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_903928055.1", "gtdb_species": "s__CAIYPG01 sp903928055", "ani": 76.661, "matched_fragments": 113, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-39;g__CAIYPG01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.93", "min_intra_species_ani": "99.93", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_016867955.1", "gtdb_species": "s__CAIYPG01 sp016867955", "ani": 76.5457, "matched_fragments": 87, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-39;g__CAIYPG01", "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_003590835.1", "gtdb_species": "s__Paucimonas sp003590835", "ani": 76.3349, "matched_fragments": 66, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paucimonas", "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_001591165.1", "gtdb_species": "s__Thauera butanivorans", "ani": 76.2727, "matched_fragments": 120, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Thauera", "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_903889565.1", "gtdb_species": "s__PALSA-1004 sp903889565", "ani": 76.1533, "matched_fragments": 122, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-41;g__PALSA-1004", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.70", "min_intra_species_ani": "99.55", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 17, "status": "-" }, { "accession": "GCF_004114795.1", "gtdb_species": "s__Paucimonas sp004114795", "ani": 76.1431, "matched_fragments": 61, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Paucimonas", "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_000272025.2", "gtdb_species": "s__AKCV01 sp000272025", "ani": 76.0393, "matched_fragments": 73, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__AKCV01", "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_902825845.1", "gtdb_species": "s__UBA5216 sp902825845", "ani": 75.9593, "matched_fragments": 88, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-41;g__UBA5216", "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_903913965.1", "gtdb_species": "s__PALSA-1004 sp903913965", "ani": 75.8639, "matched_fragments": 63, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-41;g__PALSA-1004", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.84", "min_intra_species_ani": "98.17", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.70", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_009720825.1", "gtdb_species": "s__Duganella radicis", "ani": 75.7753, "matched_fragments": 106, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Duganella", "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_018304945.1", "gtdb_species": "s__Collimonas sp018304945", "ani": 75.7129, "matched_fragments": 69, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Collimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.22", "min_intra_species_ani": "98.22", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_009885185.1", "gtdb_species": "s__UBA5216 sp009885185", "ani": 75.4211, "matched_fragments": 58, "total_fragments": 632, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__SG8-41;g__UBA5216", "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__SG8-39", "g__CAITSH01", "s__CAITSH01 sp945861875" ], "_genome_taxon": [ "Betaproteobacteria", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__SG8-39", "g__CAITSH01", "s__CAITSH01 sp945861875", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Burkholderiales", "SG8-39", "CAITSH01", "CAITSH01", "sp945861875" ], "_meo": [ { "id": "MEO_0000038", "label": "freshwater" }, { "id": "MEO_0000024", "label": "lake" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }