{ "type": "genome", "identifier": "GCF_010811875.1", "organism": "Bradyrhizobium uaiense", "title": "Bradyrhizobium uaiense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Universidade Federal de Lavras", "publication": [ {} ], "properties": { "assembly_accession": "GCF_010811875.1", "bioproject": "PRJNA224116", "biosample": "SAMN12237784", "wgs_master": "VKHP00000000.1", "refseq_category": "reference genome", "taxid": "2594946", "species_taxid": "2594946", "organism_name": "Bradyrhizobium uaiense", "infraspecific_name": "strain=UFLA03-164", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/19", "asm_name": "ASM1081187v1", "asm_submitter": "Universidade Federal de Lavras", "gbrs_paired_asm": "GCA_010811875.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/010/811/875/GCF_010811875.1_ASM1081187v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "9972761", "genome_size_ungapped": "9972761", "gc_percent": "63.500000", "replicon_count": "0", "scaffold_count": "1309", "contig_count": "1309", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_010811875.1-RS_2024_05_26", "annotation_date": "2024-05-26", "total_gene_count": "10043", "protein_coding_gene_count": "9204", "non_coding_gene_count": "70", "pubmed_id": "32062690" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-02-19", "dateModified": "2020-02-19", "datePublished": "2020-02-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Bradyrhizobium uaiense" ], "sample_taxid": [ "2594946" ], "sample_host_organism": [ "Vigna unguiculata" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Brazil:Pocos de Caldas" ], "sample_host_location_id": [], "data_size": "2.818 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 2.08, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "9972761", "Number of Sequences": "1309", "Longest Sequences (bp)": "158519", "N50 (bp)": "30938", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.3", "Number of CDSs": "8907", "Average Protein Length": "291.3", "Coding Ratio (%)": "78.1", "Number of rRNAs": "3", "Number of tRNAs": "67", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bradyrhizobium uaiense", "strain": "strain=UFLA03-164", "accession": "GCA_010811875.1", "taxid": 2594946, "species_taxid": 2594946, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2951, "total_fragments": 2985, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Bradyrhizobium acaciae", "strain": "strain=10BB", "accession": "GCA_020889785.1", "taxid": 2683706, "species_taxid": 2683706, "relation_to_type": "type", "validated": true, "ani": 95.7033, "matched_fragments": 2146, "total_fragments": 2985, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Bradyrhizobium oropedii", "strain": "strain=Pear76", "accession": "GCA_020889685.1", "taxid": 1571201, "species_taxid": 1571201, "relation_to_type": "type", "validated": true, "ani": 94.9619, "matched_fragments": 2111, "total_fragments": 2985, "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": 91.3694, "matched_fragments": 2245, "total_fragments": 2985, "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": 91.2208, "matched_fragments": 2090, "total_fragments": 2985, "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": 91.0477, "matched_fragments": 1992, "total_fragments": 2985, "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": 91.0233, "matched_fragments": 2144, "total_fragments": 2985, "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": 90.7476, "matched_fragments": 2087, "total_fragments": 2985, "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": 90.6779, "matched_fragments": 2011, "total_fragments": 2985, "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": 90.2577, "matched_fragments": 2029, "total_fragments": 2985, "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": 90.2085, "matched_fragments": 2123, "total_fragments": 2985, "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": 90.189, "matched_fragments": 2121, "total_fragments": 2985, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.08, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_018130545.1", "gtdb_species": "s__Bradyrhizobium tropiciagri_A", "ani": 91.6371, "matched_fragments": 1974, "total_fragments": 2985, "gtdb_taxonomy": 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