{ "type": "genome", "identifier": "GCA_004297465.1", "organism": "Xanthobacteraceae bacterium", "title": "Xanthobacteraceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "University of Oklahoma", "publication": [ {} ], "properties": { "assembly_accession": "GCA_004297465.1", "bioproject": "PRJNA514088", "biosample": "SAMN10720207", "wgs_master": "SCUB00000000.1", "refseq_category": "na", "taxid": "2021379", "species_taxid": "2021379", "organism_name": "Xanthobacteraceae bacterium", "infraspecific_name": "", "isolate": "FW602_bin.18", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/02/25", "asm_name": "ASM429746v1", "submitter": "University of Oklahoma", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/004/297/465/GCA_004297465.1_ASM429746v1", "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": "2019-02-25", "dateModified": "2019-02-25", "datePublished": "2019-02-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Xanthobacteraceae bacterium" ], "sample_taxid": [ "2021379" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Tennessee" ], "sample_host_location_id": [], "data_size": "0.853 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)": "3119512", "Number of Sequences": "27", "Longest Sequences (bp)": "790858", "N50 (bp)": "373877", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.2", "Number of CDSs": "2925", "Average Protein Length": "314.3", "Coding Ratio (%)": "88.4", "Number of rRNAs": "3", "Number of tRNAs": "52", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rhodopseudomonas rhenobacensis", "strain": "strain=DSM 12706", "accession": "GCA_014203125.1", "taxid": 87461, "species_taxid": 87461, "relation_to_type": "type", "validated": true, "ani": 80.4254, "matched_fragments": 572, "total_fragments": 1024, "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": 80.3362, "matched_fragments": 575, "total_fragments": 1024, "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": 80.3161, "matched_fragments": 555, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium ivorense", "strain": "strain=CI-1B", "accession": "GCA_900696085.2", "taxid": 2511166, "species_taxid": 2511166, "relation_to_type": "type", "validated": true, "ani": 80.2652, "matched_fragments": 595, "total_fragments": 1024, "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": 80.237, "matched_fragments": 537, "total_fragments": 1024, "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": 80.2231, "matched_fragments": 552, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium diazoefficiens", "strain": "strain=USDA 110", "accession": "GCA_001642675.1", "taxid": 1355477, "species_taxid": 1355477, "relation_to_type": "type", "validated": true, "ani": 80.2135, "matched_fragments": 561, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium viridifuturi", "strain": "strain=SEMIA 690", "accession": "GCA_001238275.1", "taxid": 1654716, "species_taxid": 1654716, "relation_to_type": "type", "validated": true, "ani": 80.1955, "matched_fragments": 577, "total_fragments": 1024, "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": 80.177, "matched_fragments": 569, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium diazoefficiens", "strain": "strain=USDA110", "accession": "GCA_000011365.1", "taxid": 1355477, "species_taxid": 1355477, "relation_to_type": "type", "validated": true, "ani": 80.1716, "matched_fragments": 557, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodopseudomonas pentothenatexigens", "strain": "strain=JA575", "accession": "GCA_900218015.1", "taxid": 999699, "species_taxid": 999699, "relation_to_type": "type", "validated": true, "ani": 80.0626, "matched_fragments": 542, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodopseudomonas pentothenatexigens", "strain": "strain=JA575", "accession": "GCA_003385925.1", "taxid": 999699, "species_taxid": 999699, "relation_to_type": "type", "validated": true, "ani": 80.0584, "matched_fragments": 543, "total_fragments": 1024, "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": 80.0556, "matched_fragments": 535, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium agreste", "strain": "strain=CNPSo 4010", "accession": "GCA_016031625.1", "taxid": 2751811, "species_taxid": 2751811, "relation_to_type": "type", "validated": true, "ani": 80.046, "matched_fragments": 553, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium nitroreducens", "strain": "strain=TSA1", "accession": "GCA_002776695.1", "taxid": 709803, "species_taxid": 709803, "relation_to_type": "type", "validated": true, "ani": 80.04, "matched_fragments": 571, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium frederickii", "strain": "strain=CNPSo 3426", "accession": "GCA_004570865.1", "taxid": 2560054, "species_taxid": 2560054, "relation_to_type": "type", "validated": true, "ani": 80.0205, "matched_fragments": 572, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium diversitatis", "strain": "strain=CNPSo 4019", "accession": "GCA_016031635.1", "taxid": 2755406, "species_taxid": 2755406, "relation_to_type": "type", "validated": true, "ani": 80.0137, "matched_fragments": 553, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium stylosanthis", "strain": "strain=BR 446", "accession": "GCA_001641335.1", "taxid": 1803665, "species_taxid": 1803665, "relation_to_type": "type", "validated": true, "ani": 80.0104, "matched_fragments": 579, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium forestalis", "strain": "strain=INPA54B", "accession": "GCA_002795245.1", "taxid": 1419263, "species_taxid": 1419263, "relation_to_type": "type", "validated": true, "ani": 80.0055, "matched_fragments": 552, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium japonicum", "strain": "strain=USDA 6", "accession": "GCA_000472985.1", "taxid": 375, "species_taxid": 375, "relation_to_type": "type", "validated": true, "ani": 80.0039, "matched_fragments": 539, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium cajani", "strain": "strain=1010", "accession": "GCA_009759665.1", "taxid": 1928661, "species_taxid": 1928661, "relation_to_type": "type", "validated": true, "ani": 79.9812, "matched_fragments": 559, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium japonicum", "strain": "strain=NBRC 14783", "accession": "GCA_006539645.1", "taxid": 375, "species_taxid": 375, "relation_to_type": "type", "validated": true, "ani": 79.9754, "matched_fragments": 542, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium cosmicum", "strain": "strain=58S1", "accession": "GCA_007290395.1", "taxid": 1404864, "species_taxid": 1404864, "relation_to_type": "type", "validated": true, "ani": 79.9468, "matched_fragments": 544, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodopseudomonas pseudopalustris", "strain": "strain=DSM 123", "accession": "GCA_900110435.1", "taxid": 1513892, "species_taxid": 1513892, "relation_to_type": "type", "validated": true, "ani": 79.9423, "matched_fragments": 542, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium guangxiense", "strain": "strain=CCBAU 53363", "accession": "GCA_004114915.1", "taxid": 1325115, "species_taxid": 1325115, "relation_to_type": "type", "validated": true, "ani": 79.8906, "matched_fragments": 553, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodopseudomonas faecalis", "strain": "strain=JCM 11668", "accession": "GCA_003217325.1", "taxid": 99655, "species_taxid": 99655, "relation_to_type": "type", "validated": true, "ani": 79.7868, "matched_fragments": 488, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium paxllaeri", "strain": "strain=LMTR 21", "accession": "GCA_001693515.2", "taxid": 190148, "species_taxid": 190148, "relation_to_type": "type", "validated": true, "ani": 79.7286, "matched_fragments": 543, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium cenepequi", "strain": "strain=CNPSo 4026", "accession": "GCA_020329485.1", "taxid": 2821403, "species_taxid": 2821403, "relation_to_type": "type", "validated": true, "ani": 79.5478, "matched_fragments": 522, "total_fragments": 1024, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_004297465.1", "gtdb_species": "s__SCUB01 sp004297465", "ani": 100.0, "matched_fragments": 1023, "total_fragments": 1024, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Xanthobacteraceae;g__SCUB01", "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": "conclusive" }, { "accession": "GCA_003576765.1", "gtdb_species": "s__PRO6 sp003576765", "ani": 80.855, "matched_fragments": 409, "total_fragments": 1024, 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"d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Xanthobacteraceae;g__Bradyrhizobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.68", "min_intra_species_ani": "98.68", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000282615.1", "gtdb_species": "s__Bradyrhizobium sp000282615", "ani": 79.9217, "matched_fragments": 528, "total_fragments": 1024, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Xanthobacteraceae;g__Bradyrhizobium", "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_003226555.1", "gtdb_species": "s__Rhodopseudomonas palustris_I", "ani": 79.8721, "matched_fragments": 524, "total_fragments": 1024, "gtdb_taxonomy": 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