{ "type": "genome", "identifier": "GCA_937872855.1", "organism": "uncultured Bradyrhizobium sp.", "title": "uncultured Bradyrhizobium sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "European Bioinformatics Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCA_937872855.1", "bioproject": "PRJEB51080", "biosample": "SAMEA14036868", "wgs_master": "CALMUJ000000000.1", "refseq_category": "na", "taxid": "199684", "species_taxid": "199684", "organism_name": "uncultured Bradyrhizobium sp.", "infraspecific_name": "", "isolate": "SRR6158312_bin.26_CONCOCT_v1.1_MAG", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/01/12", "asm_name": "SRR6158312_bin.26_CONCOCT_v1.1_MAG", "submitter": "European Bioinformatics Institute", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/937/872/855/GCA_937872855.1_SRR6158312_bin.26_CONCOCT_v1.1_MAG", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-01-12", "dateModified": "2023-01-12", "datePublished": "2023-01-12", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Bradyrhizobium sp." ], "sample_taxid": [ "199684" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Italy" ], "sample_host_location_id": [], "data_size": "2.501 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 87.5, "contamination": 8.33, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "8960856", "Number of Sequences": "358", "Longest Sequences (bp)": "130029", "N50 (bp)": "36406", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.2", "Number of CDSs": "8336", "Average Protein Length": "301.5", "Coding Ratio (%)": "84.1", "Number of rRNAs": "2", "Number of tRNAs": "61", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bradyrhizobium viridifuturi", "strain": "strain=SEMIA 690", "accession": "GCA_001238275.1", "taxid": 1654716, "species_taxid": 1654716, "relation_to_type": "type", "validated": true, "ani": 92.4529, "matched_fragments": 1963, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium tropiciagri", "strain": "strain=SEMIA 6148", "accession": "GCA_001189845.1", "taxid": 312253, "species_taxid": 312253, "relation_to_type": "type", "validated": true, "ani": 92.0829, "matched_fragments": 1950, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium mercantei", "strain": "strain=SEMIA 6399", "accession": "GCA_001982635.1", "taxid": 1904807, "species_taxid": 1904807, "relation_to_type": "type", "validated": true, "ani": 91.0833, "matched_fragments": 1893, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium quebecense", "strain": "strain=66S1MB, /ecotype=symbiovar septentrionalis", "accession": "GCA_013373795.3", "taxid": 2748629, "species_taxid": 2748629, "relation_to_type": "type", "validated": true, "ani": 90.9463, "matched_fragments": 1948, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium altum", "strain": "strain=Pear77", "accession": "GCA_020889705.1", "taxid": 1571202, "species_taxid": 1571202, "relation_to_type": "type", "validated": true, "ani": 90.8806, "matched_fragments": 1835, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium embrapense", "strain": "strain=SEMIA 6208", "accession": "GCA_001189235.2", "taxid": 630921, "species_taxid": 630921, "relation_to_type": "type", "validated": true, "ani": 90.6939, "matched_fragments": 1938, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium uaiense", "strain": "strain=UFLA03-164", "accession": "GCA_010811875.1", "taxid": 2594946, "species_taxid": 2594946, "relation_to_type": "type", "validated": true, "ani": 90.6902, "matched_fragments": 1816, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium acaciae", "strain": "strain=10BB", "accession": "GCA_020889785.1", "taxid": 2683706, "species_taxid": 2683706, "relation_to_type": "type", "validated": true, "ani": 90.6302, "matched_fragments": 1807, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium oropedii", "strain": "strain=Pear76", "accession": "GCA_020889685.1", "taxid": 1571201, "species_taxid": 1571201, "relation_to_type": "type", "validated": true, "ani": 90.5774, "matched_fragments": 1832, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium pachyrhizi", "strain": "strain=PAC 48", "accession": "GCA_001189245.1", "taxid": 280333, "species_taxid": 280333, "relation_to_type": "type", "validated": true, "ani": 90.3838, "matched_fragments": 1801, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium elkanii", "strain": "strain=USDA 76", "accession": "GCA_000379145.1", "taxid": 29448, "species_taxid": 29448, "relation_to_type": "type", "validated": true, "ani": 90.24, "matched_fragments": 1893, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium elkanii", "strain": "strain=USDA 76", "accession": "GCA_023278185.1", "taxid": 29448, "species_taxid": 29448, "relation_to_type": "type", "validated": true, "ani": 90.2219, "matched_fragments": 1874, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium septentrionale", "strain": "strain=1S1", "accession": "GCA_011516645.4", "taxid": 1404411, "species_taxid": 1404411, "relation_to_type": "type", "validated": true, "ani": 89.8201, "matched_fragments": 1878, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium betae", "strain": "strain=CECT 5829", "accession": "GCA_024806875.1", "taxid": 244734, "species_taxid": 244734, "relation_to_type": "type", "validated": true, "ani": 83.4483, "matched_fragments": 1401, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas echinoides", "strain": "strain=ATCC 14820", "accession": "GCA_000241465.1", "taxid": 59803, "species_taxid": 59803, "relation_to_type": "type", "validated": true, "ani": 83.1113, "matched_fragments": 313, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium sediminis", "strain": "strain=S2-20-1", "accession": "GCA_018736085.1", "taxid": 2840469, "species_taxid": 2840469, "relation_to_type": "type", "validated": true, "ani": 82.5391, "matched_fragments": 1112, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bosea robiniae", "strain": "strain=DSM 26672", "accession": "GCA_900102525.1", "taxid": 1036780, "species_taxid": 1036780, "relation_to_type": "type", "validated": true, "ani": 77.378, "matched_fragments": 468, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aurantimonas aggregata", "strain": "strain=KCTC 52919", "accession": "GCA_010500835.1", "taxid": 2047720, "species_taxid": 2047720, "relation_to_type": "type", "validated": true, "ani": 77.2294, "matched_fragments": 368, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium metallidurans", "strain": "strain=STM 2683", "accession": "GCA_000350085.1", "taxid": 489722, "species_taxid": 489722, "relation_to_type": "type", "validated": true, "ani": 77.2131, "matched_fragments": 395, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas glacialis", "strain": "strain=CGMCC 1.8957", "accession": "GCA_014653575.1", "taxid": 658225, "species_taxid": 658225, "relation_to_type": "type", "validated": true, "ani": 77.1809, "matched_fragments": 270, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Jiella sonneratiae", "strain": "strain=MQZ13P-4", "accession": "GCA_017353515.1", "taxid": 2816856, "species_taxid": 2816856, "relation_to_type": "type", "validated": true, "ani": 77.14, "matched_fragments": 385, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium jarvisii", "strain": "strain=LMG 28313", "accession": "GCA_003601985.1", "taxid": 1777867, "species_taxid": 1777867, "relation_to_type": "type", "validated": true, "ani": 77.111, "matched_fragments": 420, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium jarvisii", "strain": "strain=ATCC 33669", "accession": "GCA_013170785.1", "taxid": 1777867, "species_taxid": 1777867, "relation_to_type": "type", "validated": true, "ani": 77.0874, "matched_fragments": 418, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Jiella endophytica", "strain": "strain=CBS5Q-3", "accession": "GCA_004519335.1", "taxid": 2558362, "species_taxid": 2558362, "relation_to_type": "type", "validated": true, "ani": 76.9869, "matched_fragments": 375, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquamicrobium lusatiense", "strain": "strain=DSM 11099", "accession": "GCA_014201615.1", "taxid": 89772, "species_taxid": 89772, "relation_to_type": "type", "validated": true, "ani": 76.96, "matched_fragments": 236, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium wenxiniae", "strain": "strain=WYCCWR 10195", "accession": "GCA_002284535.1", "taxid": 2014805, "species_taxid": 2014805, "relation_to_type": "type", "validated": true, "ani": 76.928, "matched_fragments": 351, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas desiccabilis", "strain": "strain=CP1D", "accession": "GCA_004135605.1", "taxid": 429134, "species_taxid": 429134, "relation_to_type": "type", "validated": true, "ani": 76.4416, "matched_fragments": 220, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas desiccabilis", "strain": "strain=DSM 16792", "accession": "GCA_014196135.1", "taxid": 429134, "species_taxid": 429134, "relation_to_type": "type", "validated": true, "ani": 76.4413, "matched_fragments": 219, "total_fragments": 2814, "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": 76.3929, "matched_fragments": 177, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas cavernae", "strain": "strain=K2R01-6", "accession": "GCA_003590775.1", "taxid": 2320861, "species_taxid": 2320861, "relation_to_type": "type", "validated": true, "ani": 76.2527, "matched_fragments": 187, "total_fragments": 2814, "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": 76.2334, "matched_fragments": 193, "total_fragments": 2814, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 87.5, "contamination": 8.33, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016839165.1", "gtdb_species": "s__Bradyrhizobium sp003020075", "ani": 99.8391, "matched_fragments": 2323, "total_fragments": 2814, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Xanthobacteraceae;g__Bradyrhizobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.93", "min_intra_species_ani": "99.86", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 16, "status": "conclusive" }, { "accession": "GCA_001238275.1", "gtdb_species": "s__Bradyrhizobium 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