{ "type": "genome", "identifier": "GCF_002776695.1", "organism": "Bradyrhizobium nitroreducens", "title": "Bradyrhizobium nitroreducens", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Minnesota", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002776695.1", "bioproject": "PRJNA224116", "biosample": "SAMN03770688", "wgs_master": "LFJC00000000.1", "refseq_category": "reference genome", "taxid": "709803", "species_taxid": "709803", "organism_name": "Bradyrhizobium nitroreducens", "infraspecific_name": "strain=TSA1", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/11/16", "asm_name": "ASM277669v1", "asm_submitter": "University of Minnesota", "gbrs_paired_asm": "GCA_002776695.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/776/695/GCF_002776695.1_ASM277669v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8199267", "genome_size_ungapped": "8197857", "gc_percent": "64.500000", "replicon_count": "0", "scaffold_count": "15", "contig_count": "15", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002776695.1-RS_2024_05_26", "annotation_date": "2024-05-26", "total_gene_count": "7681", "protein_coding_gene_count": "7541", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-11-16", "dateModified": "2017-11-16", "datePublished": "2017-11-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Bradyrhizobium nitroreducens" ], "sample_taxid": [ "709803" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan: Tokyo" ], "sample_host_location_id": [], "data_size": "2.259 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": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "8199267", "Number of Sequences": "15", "Longest Sequences (bp)": "8173839", "N50 (bp)": "8173839", "Gap Ratio (%)": "0.017197", "GCcontent (%)": "64.3", "Number of CDSs": "7606", "Average Protein Length": "311.4", "Coding Ratio (%)": "86.7", "Number of rRNAs": "3", "Number of tRNAs": "53", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bradyrhizobium nitroreducens", "strain": "strain=TSA1", "accession": "GCA_002776695.1", "taxid": 709803, "species_taxid": 709803, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2724, "total_fragments": 2726, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bradyrhizobium ottawaense", "strain": "strain=OO99", "accession": "GCA_002278135.2", "taxid": 931866, "species_taxid": 931866, "relation_to_type": "type", "validated": true, "ani": 90.6574, "matched_fragments": 2037, "total_fragments": 2726, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium nanningense", "strain": "strain=CCBAU 53390", "accession": "GCA_004114535.1", "taxid": 1325118, "species_taxid": 1325118, "relation_to_type": "type", "validated": true, "ani": 90.6421, "matched_fragments": 1947, "total_fragments": 2726, "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": 90.5651, "matched_fragments": 1953, "total_fragments": 2726, "ani_threshold": 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26795", "accession": "GCA_900116675.1", "taxid": 858423, "species_taxid": 858423, "relation_to_type": "type", "validated": true, "ani": 89.048, "matched_fragments": 1960, "total_fragments": 2726, "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": 88.8769, "matched_fragments": 1878, "total_fragments": 2726, "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": 88.705, "matched_fragments": 1834, "total_fragments": 2726, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium daqingense", "strain": "strain=CCBAU 15774", "accession": "GCA_021044685.1", "taxid": 993502, "species_taxid": 993502, "relation_to_type": "type", "validated": true, "ani": 88.6707, "matched_fragments": 1847, "total_fragments": 2726, "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": 82.9856, "matched_fragments": 1483, "total_fragments": 2726, "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": 82.83, "matched_fragments": 1381, "total_fragments": 2726, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002776695.1", "gtdb_species": 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