{ "type": "genome", "identifier": "GCF_014843825.1", "organism": "Mesorhizobium silamurunense", "title": "Mesorhizobium silamurunense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Mesorhizobium silamurunense CCBAU 01550", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014843825.1", "bioproject": "PRJNA224116", "biosample": "SAMN02712003", "wgs_master": "JHQR00000000.1", "refseq_category": "na", "taxid": "499528", "species_taxid": "499528", "organism_name": "Mesorhizobium silamurunense", "infraspecific_name": "strain=CCBAU 01550", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/05", "asm_name": "ASM1484382v1", "asm_submitter": "Mesorhizobium silamurunense CCBAU 01550", "gbrs_paired_asm": "GCA_014843825.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/843/825/GCF_014843825.1_ASM1484382v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7043511", "genome_size_ungapped": "7043511", "gc_percent": "63.000000", "replicon_count": "0", "scaffold_count": "493", "contig_count": "493", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014843825.1-RS_2024_05_06", "annotation_date": "2024-05-06", "total_gene_count": "7303", "protein_coding_gene_count": "6758", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-10-05", "dateModified": "2020-10-05", "datePublished": "2020-10-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Mesorhizobium silamurunense" ], "sample_taxid": [ "499528" ], "sample_host_organism": [ "Astragalus sp." ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Neimenggu" ], "sample_host_location_id": [], "data_size": "1.971 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "7043511", "Number of Sequences": "493", "Longest Sequences (bp)": "138159", "N50 (bp)": "27072", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.1", "Number of CDSs": "6672", "Average Protein Length": "280.8", "Coding Ratio (%)": "79.8", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mesorhizobium silamurunense", "strain": "strain=CCBAU 01550", "accession": "GCA_014843825.1", "taxid": 499528, "species_taxid": 499528, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2097, "total_fragments": 2118, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Mesorhizobium tamadayense", "strain": "strain=DSM 28320", "accession": "GCA_003863365.1", "taxid": 425306, "species_taxid": 425306, "relation_to_type": "type", "validated": true, "ani": 90.7301, "matched_fragments": 1626, "total_fragments": 2118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium hawassense", "strain": "strain=AC99b", "accession": "GCA_003289945.1", "taxid": 1209954, "species_taxid": 1209954, "relation_to_type": "type", "validated": true, "ani": 87.391, "matched_fragments": 1511, "total_fragments": 2118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium atlanticum", "strain": "strain=CNPSo 3140", "accession": "GCA_003289965.1", "taxid": 2233532, "species_taxid": 2233532, "relation_to_type": "type", "validated": true, "ani": 87.3379, "matched_fragments": 1458, "total_fragments": 2118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium waimense", "strain": "strain=ICMP19557", "accession": "GCA_003601975.1", "taxid": 1300307, "species_taxid": 1300307, "relation_to_type": "type", "validated": true, "ani": 85.6524, "matched_fragments": 1480, "total_fragments": 2118, "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": 85.0322, "matched_fragments": 1222, "total_fragments": 2118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium sophorae", "strain": "strain=ICMP 19535", "accession": "GCA_002270415.1", "taxid": 1300294, "species_taxid": 1300294, "relation_to_type": "type", "validated": true, "ani": 84.4074, "matched_fragments": 1389, "total_fragments": 2118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium comanense", "strain": "strain=3P27G6", "accession": "GCA_005503535.1", "taxid": 2502215, "species_taxid": 2502215, "relation_to_type": "type", "validated": true, "ani": 84.3335, "matched_fragments": 1215, "total_fragments": 2118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium loti", "strain": "strain=DSM 2626", "accession": "GCA_003148495.1", "taxid": 381, "species_taxid": 381, "relation_to_type": "suspected-type", "validated": true, "ani": 84.2551, "matched_fragments": 1371, "total_fragments": 2118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium onobrychidis", "strain": "strain=OM4", "accession": "GCA_024707545.1", "taxid": 2775404, "species_taxid": 2775404, "relation_to_type": "type", "validated": true, "ani": 84.1533, "matched_fragments": 1325, "total_fragments": 2118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudaminobacter soli", "strain": "strain=HC19", "accession": "GCA_014595955.1", "taxid": 2831468, "species_taxid": 2831468, "relation_to_type": "type", "validated": true, "ani": 79.5765, "matched_fragments": 661, "total_fragments": 2118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudaminobacter soli", "strain": "strain=19-2017", "accession": "GCA_018310375.1", "taxid": 2831468, "species_taxid": 2831468, "relation_to_type": "type", "validated": true, "ani": 79.5639, "matched_fragments": 664, "total_fragments": 2118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitratireductor alexandrii", "strain": "strain=Z3-1", "accession": "GCA_004000215.1", "taxid": 2448161, "species_taxid": 2448161, "relation_to_type": "type", "validated": true, "ani": 79.469, "matched_fragments": 583, "total_fragments": 2118, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014843825.1", "gtdb_species": "s__Mesorhizobium silamurunense", "ani": 100.0, "matched_fragments": 2097, "total_fragments": 2118, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", "min_intra_species_ani": "99.52", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_003952385.1", "gtdb_species": "s__Mesorhizobium sp003952385", "ani": 91.3779, "matched_fragments": 1604, "total_fragments": 2118, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.01", "min_intra_species_ani": "97.50", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.87", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_003863365.1", "gtdb_species": "s__Mesorhizobium tamadayense", "ani": 90.7483, "matched_fragments": 1622, "total_fragments": 2118, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium", "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_003952465.1", "gtdb_species": "s__Mesorhizobium sp003952465", "ani": 90.185, "matched_fragments": 1666, "total_fragments": 2118, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.37", "min_intra_species_ani": "98.09", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_004963905.1", "gtdb_species": "s__Mesorhizobium sp004963905", "ani": 90.1391, "matched_fragments": 1540, "total_fragments": 2118, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium", "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_004791585.1", "gtdb_species": "s__Mesorhizobium sp004791585", "ani": 90.05, "matched_fragments": 1586, "total_fragments": 2118, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.07", "min_intra_species_ani": "98.11", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.89", "num_clustered_genomes": 24, "status": "-" }, { "accession": "GCA_004020545.1", "gtdb_species": "s__Mesorhizobium sp004020545", "ani": 89.9979, "matched_fragments": 1557, "total_fragments": 2118, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.24", "min_intra_species_ani": "97.54", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.86", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_003952485.1", "gtdb_species": "s__Mesorhizobium sp003952485", "ani": 89.8649, "matched_fragments": 1604, "total_fragments": 2118, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.38", "min_intra_species_ani": "98.21", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_002294995.1", "gtdb_species": "s__Mesorhizobium sp002294995", "ani": 89.8261, "matched_fragments": 1495, "total_fragments": 2118, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium", "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_002294985.1", "gtdb_species": "s__Mesorhizobium sp002294985", "ani": 89.6644, "matched_fragments": 1464, "total_fragments": 2118, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.32", "min_intra_species_ani": "96.92", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.76", "num_clustered_genomes": 62, "status": "-" }, { "accession": "GCA_000824825.2", "gtdb_species": "s__Mesorhizobium sp000824825", "ani": 89.3752, "matched_fragments": 1523, "total_fragments": 2118, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.176, "cell_length": 0.491, "doubling_h": 0.38, "growth_tmp": 30.0, "optimum_tmp": 28.0, "optimum_ph": 7.0, "genome_size": 6924855.425, "gc_content": 61.795, "coding_genes": 6455.004, "rRNA16S_genes": 2.0, "tRNA_genes": 52.916, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Mesorhizobium", "silamurunense" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }