{ "type": "genome", "identifier": "GCF_004114935.1", "organism": "Bradyrhizobium zhanjiangense", "title": "Bradyrhizobium zhanjiangense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "China Agricultural University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004114935.1", "bioproject": "PRJNA224116", "biosample": "SAMN03459138", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1325107", "species_taxid": "1325107", "organism_name": "Bradyrhizobium zhanjiangense", "infraspecific_name": "strain=CCBAU 51778", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/01/28", "asm_name": "ASM411493v1", "asm_submitter": "China Agricultural University", "gbrs_paired_asm": "GCA_004114935.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/114/935/GCF_004114935.1_ASM411493v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "9342022", "genome_size_ungapped": "9342022", "gc_percent": "63.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004114935.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "8814", "protein_coding_gene_count": "8385", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-01-28", "dateModified": "2019-01-28", "datePublished": "2019-01-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Bradyrhizobium zhanjiangense" ], "sample_taxid": [ "1325107" ], "sample_host_organism": [ "Arachis hypogaea" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Guangdong" ], "sample_host_location_id": [], "data_size": "2.591 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)": "9342022", "Number of Sequences": "1", "Longest Sequences (bp)": "9342022", "N50 (bp)": "9342022", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.9", "Number of CDSs": "8894", "Average Protein Length": "289.9", "Coding Ratio (%)": "82.8", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bradyrhizobium zhanjiangense", "strain": "strain=CCBAU 51778", "accession": "GCA_004114935.1", "taxid": 1325107, "species_taxid": 1325107, "relation_to_type": "type", "validated": true, "ani": 100.0, 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3114, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium vignae", "strain": "strain=LMG 28791", "accession": "GCA_004114425.1", "taxid": 1549949, "species_taxid": 1549949, "relation_to_type": "type", "validated": true, "ani": 89.3362, "matched_fragments": 2028, "total_fragments": 3114, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium niftali", "strain": "strain=CNPSo 3448", "accession": "GCA_004571025.1", "taxid": 2560055, "species_taxid": 2560055, "relation_to_type": "type", "validated": true, "ani": 89.0349, "matched_fragments": 2145, "total_fragments": 3114, "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": 89.0098, "matched_fragments": 1898, "total_fragments": 3114, "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": 88.9896, "matched_fragments": 2102, "total_fragments": 3114, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium arachidis", "strain": "strain=LMG 26795", "accession": "GCA_900116675.1", "taxid": 858423, "species_taxid": 858423, "relation_to_type": "type", "validated": true, "ani": 88.9524, "matched_fragments": 2119, "total_fragments": 3114, "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": 88.9476, "matched_fragments": 2113, "total_fragments": 3114, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium arachidis", "strain": "strain=CCBAU 051107", "accession": "GCA_015291705.1", "taxid": 858423, "species_taxid": 858423, "relation_to_type": "type", "validated": true, "ani": 88.928, "matched_fragments": 2154, "total_fragments": 3114, "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": 88.9246, "matched_fragments": 2093, "total_fragments": 3114, "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": 88.7793, "matched_fragments": 1906, "total_fragments": 3114, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium glycinis", "strain": "strain=CNPSo 4016", "accession": "GCA_016031655.1", "taxid": 2751812, "species_taxid": 2751812, "relation_to_type": "type", "validated": true, "ani": 88.7063, "matched_fragments": 1973, "total_fragments": 3114, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium amphicarpaeae", "strain": "strain=39S1MB", "accession": "GCA_002266435.2", "taxid": 1404768, "species_taxid": 1404768, "relation_to_type": "type", "validated": true, "ani": 88.5958, "matched_fragments": 1804, "total_fragments": 3114, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium sacchari", "strain": "strain=p9-20", "accession": "GCA_002068095.1", "taxid": 1399419, "species_taxid": 1399419, "relation_to_type": "type", "validated": true, "ani": 88.5646, "matched_fragments": 2051, "total_fragments": 3114, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium yuanmingense", "strain": "strain=CCBAU 10071", "accession": "GCA_900094575.1", "taxid": 108015, "species_taxid": 108015, "relation_to_type": "type", "validated": true, "ani": 88.4876, "matched_fragments": 1998, "total_fragments": 3114, "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": 88.4292, "matched_fragments": 1709, "total_fragments": 3114, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium centrolobii", "strain": "strain=BR 10245", "accession": "GCA_001641635.1", "taxid": 1505087, "species_taxid": 1505087, "relation_to_type": "type", "validated": true, "ani": 87.3084, "matched_fragments": 1967, "total_fragments": 3114, "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": 82.8003, "matched_fragments": 1449, "total_fragments": 3114, "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": 82.7902, "matched_fragments": 1561, "total_fragments": 3114, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004114935.1", "gtdb_species": "s__Bradyrhizobium zhanjiangense", "ani": 100.0, "matched_fragments": 3113, "total_fragments": 3114, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Xanthobacteraceae;g__Bradyrhizobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.50", 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