{ "type": "genome", "identifier": "GCF_029892515.1", "organism": "Mesorhizobium soli", "title": "Mesorhizobium soli", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_029892515.1", "bioproject": "PRJNA224116", "biosample": "SAMN28057926", "wgs_master": "JARXVF000000000.1", "refseq_category": "na", "taxid": "1295366", "species_taxid": "1295366", "organism_name": "Mesorhizobium soli", "infraspecific_name": "strain=NHI-8", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/04/28", "asm_name": "ASM2989251v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_029892515.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/029/892/515/GCF_029892515.1_ASM2989251v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6126230", "genome_size_ungapped": "6126230", "gc_percent": "62.500000", "replicon_count": "0", "scaffold_count": "22", "contig_count": "22", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_029892515.1-RS_2024_04_28", "annotation_date": "2024-04-28", "total_gene_count": "5827", "protein_coding_gene_count": "5640", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-04-28", "dateModified": "2023-04-28", "datePublished": "2023-04-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Mesorhizobium soli" ], "sample_taxid": [ "1295366" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Puerto Rico" ], "sample_host_location_id": [], "data_size": "1.708 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)": "6126230", "Number of Sequences": "22", "Longest Sequences (bp)": "2262393", "N50 (bp)": "675506", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.6", "Number of CDSs": "5769", "Average Protein Length": "308.0", "Coding Ratio (%)": "87.0", "Number of rRNAs": "4", "Number of tRNAs": "56", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mesorhizobium zhangyense", "strain": "strain=CGMCC 1.15528", "accession": "GCA_011045115.1", "taxid": 1776730, "species_taxid": 1776730, "relation_to_type": "type", "validated": true, "ani": 82.0174, "matched_fragments": 949, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aminobacter aganoensis", "strain": "strain=DSM 7051", "accession": "GCA_014206975.1", "taxid": 83264, "species_taxid": 83264, "relation_to_type": "type", "validated": true, "ani": 81.2828, "matched_fragments": 854, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aminobacter niigataensis", "strain": "strain=DSM 7050", "accession": "GCA_014200015.1", "taxid": 83265, "species_taxid": 83265, "relation_to_type": "type", "validated": true, "ani": 81.1705, "matched_fragments": 833, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aminobacter ciceronei", "strain": "strain=DSM 15910", "accession": "GCA_014138625.1", "taxid": 150723, "species_taxid": 150723, "relation_to_type": "type", "validated": true, "ani": 80.9561, "matched_fragments": 890, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aminobacter aminovorans", "strain": "strain=NCTC10684", "accession": "GCA_900445235.1", "taxid": 83263, "species_taxid": 83263, "relation_to_type": "type", "validated": true, "ani": 80.8361, "matched_fragments": 871, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aminobacter aminovorans", "strain": "strain=DSM 7048", "accession": "GCA_004341645.1", "taxid": 83263, "species_taxid": 83263, "relation_to_type": "type", "validated": true, "ani": 80.8246, "matched_fragments": 876, "total_fragments": 2035, "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": 80.6142, "matched_fragments": 881, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium carmichaelinearum", "strain": "strain=ICMP 18942", "accession": "GCA_900199455.1", "taxid": 1208188, "species_taxid": 1208188, "relation_to_type": "type", "validated": true, "ani": 80.5614, "matched_fragments": 892, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium opportunistum", "strain": "strain=WSM2075", "accession": "GCA_000176035.2", "taxid": 593909, "species_taxid": 593909, "relation_to_type": "type", "validated": true, "ani": 80.5489, "matched_fragments": 866, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium jarvisii", "strain": "strain=LMG 28313", "accession": "GCA_003601985.1", "taxid": 1777867, "species_taxid": 1777867, "relation_to_type": "type", "validated": true, "ani": 80.5398, "matched_fragments": 874, "total_fragments": 2035, "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": 80.5281, "matched_fragments": 859, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium japonicum", "strain": "strain=MAFF 303099", "accession": "GCA_000009625.1", "taxid": 2066070, "species_taxid": 2066070, "relation_to_type": "type", "validated": true, "ani": 80.4975, "matched_fragments": 866, "total_fragments": 2035, "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": 80.4691, "matched_fragments": 874, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium caraganae", "strain": "strain=LMG 24397", "accession": "GCA_016836705.1", "taxid": 483206, "species_taxid": 483206, "relation_to_type": "type", "validated": true, "ani": 80.4377, "matched_fragments": 836, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium norvegicum", "strain": "strain=10.2.2", "accession": "GCA_004919685.1", "taxid": 1085774, "species_taxid": 1085774, "relation_to_type": "type", "validated": true, "ani": 80.4068, "matched_fragments": 894, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium neociceri", "strain": "strain=CCANP35", "accession": "GCA_013520985.1", "taxid": 1307853, "species_taxid": 1307853, "relation_to_type": "type", "validated": true, "ani": 80.4056, "matched_fragments": 860, "total_fragments": 2035, "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": 80.4004, "matched_fragments": 866, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium camelthorni", "strain": "strain=CCNWXJ 40-4", "accession": "GCA_011045125.1", "taxid": 475069, "species_taxid": 475069, "relation_to_type": "type", "validated": true, "ani": 80.3638, "matched_fragments": 826, "total_fragments": 2035, "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": 80.3104, "matched_fragments": 893, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium muleiense", "strain": "strain=CGMCC 1.11022", "accession": "GCA_900099905.1", "taxid": 1004279, "species_taxid": 1004279, "relation_to_type": "type", "validated": true, "ani": 80.218, "matched_fragments": 814, "total_fragments": 2035, "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": 80.1615, "matched_fragments": 824, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium albiziae", "strain": "strain=DSM 21822", "accession": "GCA_900114255.1", "taxid": 335020, "species_taxid": 335020, "relation_to_type": "type", "validated": true, "ani": 80.0994, "matched_fragments": 804, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquibium microcysteis", "strain": "strain=NIBR3", "accession": "GCA_014495845.1", "taxid": 675281, "species_taxid": 675281, "relation_to_type": "type", "validated": true, "ani": 79.6031, "matched_fragments": 684, "total_fragments": 2035, "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": 79.5795, "matched_fragments": 720, "total_fragments": 2035, "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": 79.5723, "matched_fragments": 721, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium sediminum", "strain": "strain=KCTC 42205", "accession": "GCA_013240295.1", "taxid": 1849104, "species_taxid": 1849104, "relation_to_type": "type", "validated": true, "ani": 79.2514, "matched_fragments": 611, "total_fragments": 2035, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003012705.1", "gtdb_species": "s__Pseudaminobacter soli", "ani": 90.5401, "matched_fragments": 1615, "total_fragments": 2035, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Pseudaminobacter", "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_017874015.1", "gtdb_species": "s__Pseudaminobacter sp017874015", "ani": 84.2933, "matched_fragments": 1082, "total_fragments": 2035, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Pseudaminobacter", "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_003148475.1", "gtdb_species": "s__Pseudaminobacter salicylatoxidans", "ani": 84.1128, "matched_fragments": 1006, "total_fragments": 2035, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Pseudaminobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.95", "min_intra_species_ani": "97.95", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003590645.1", "gtdb_species": "s__Pseudaminobacter sp900116595", "ani": 82.3338, "matched_fragments": 930, "total_fragments": 2035, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Pseudaminobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.40", "min_intra_species_ani": "97.54", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_011045115.1", "gtdb_species": "s__Pseudaminobacter zhangyensis", "ani": 82.0337, "matched_fragments": 947, "total_fragments": 2035, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Pseudaminobacter", "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_014206975.1", "gtdb_species": "s__Aminobacter aganoensis", "ani": 81.2409, "matched_fragments": 859, "total_fragments": 2035, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Aminobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.80", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014200015.1", "gtdb_species": "s__Aminobacter niigataensis", "ani": 81.1339, "matched_fragments": 837, "total_fragments": 2035, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Aminobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.01", "min_intra_species_ani": "98.00", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900445235.1", "gtdb_species": "s__Aminobacter aminovorans", "ani": 80.8305, "matched_fragments": 872, "total_fragments": 2035, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Aminobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, 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