{ "type": "genome", "identifier": "GCF_003403035.1", "organism": "Mesorhizobium denitrificans", "title": "Mesorhizobium denitrificans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Hankyong National University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003403035.1", "bioproject": "PRJNA224116", "biosample": "SAMN09789026", "wgs_master": "QURN00000000.1", "refseq_category": "reference genome", "taxid": "2294114", "species_taxid": "2294114", "organism_name": "Mesorhizobium denitrificans", "infraspecific_name": "strain=LA-28", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/18", "asm_name": "ASM340303v1", "asm_submitter": "Hankyong National University", "gbrs_paired_asm": "GCA_003403035.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/403/035/GCF_003403035.1_ASM340303v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4375801", "genome_size_ungapped": "4375801", "gc_percent": "58.500000", "replicon_count": "0", "scaffold_count": "45", "contig_count": "45", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003403035.1-RS_2024_05_01", "annotation_date": "2024-05-01", "total_gene_count": "4231", "protein_coding_gene_count": "4131", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-08-18", "dateModified": "2018-08-18", "datePublished": "2018-08-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Mesorhizobium denitrificans" ], "sample_taxid": [ "2294114" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Hanam-si" ], "sample_host_location_id": [], "data_size": "1.235 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)": "4375801", "Number of Sequences": "45", "Longest Sequences (bp)": "534275", "N50 (bp)": "248341", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.4", "Number of CDSs": "4235", "Average Protein Length": "309.7", "Coding Ratio (%)": "89.9", "Number of rRNAs": "3", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mesorhizobium denitrificans", "strain": "strain=LA-28", "accession": "GCA_003403035.1", "taxid": 2294114, "species_taxid": 2294114, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1437, "total_fragments": 1437, "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": 77.951, "matched_fragments": 350, "total_fragments": 1437, "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": 77.9333, "matched_fragments": 374, "total_fragments": 1437, "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": 77.9097, "matched_fragments": 382, "total_fragments": 1437, "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": 77.8023, "matched_fragments": 349, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium australicum", "strain": "strain=WSM2073", "accession": "GCA_000230995.3", "taxid": 536018, "species_taxid": 536018, "relation_to_type": "type", "validated": true, "ani": 77.797, "matched_fragments": 348, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium composti", "strain": "strain=CC-YTH430", "accession": "GCA_004801285.1", "taxid": 2675109, "species_taxid": 2675109, "relation_to_type": "type", "validated": true, "ani": 77.7956, "matched_fragments": 365, "total_fragments": 1437, "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": 77.7748, "matched_fragments": 389, "total_fragments": 1437, "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": 77.7715, "matched_fragments": 349, "total_fragments": 1437, "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": 77.7584, "matched_fragments": 386, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium erdmanii", "strain": "strain=USDA 3471", "accession": "GCA_000472705.1", "taxid": 1777866, "species_taxid": 1777866, "relation_to_type": "type", "validated": true, "ani": 77.7565, "matched_fragments": 364, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aminobacter ciceronei", "strain": "strain=DSM 17455", "accession": "GCA_014138635.1", "taxid": 150723, "species_taxid": 150723, "relation_to_type": "type", "validated": true, "ani": 77.7539, "matched_fragments": 381, "total_fragments": 1437, "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": 77.7435, "matched_fragments": 381, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium jarvisii", "strain": "strain=ATCC 33669", "accession": "GCA_013170785.1", "taxid": 1777867, "species_taxid": 1777867, "relation_to_type": "type", "validated": true, "ani": 77.724, "matched_fragments": 383, "total_fragments": 1437, "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": 77.7114, "matched_fragments": 386, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium intechi", "strain": "strain=BD68", "accession": "GCA_002879535.2", "taxid": 537601, "species_taxid": 537601, "relation_to_type": "type", "validated": true, "ani": 77.7056, "matched_fragments": 351, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium alhagi", "strain": "strain=CCNWXJ12-2", "accession": "GCA_000236565.2", "taxid": 475067, "species_taxid": 475067, "relation_to_type": "type", "validated": true, "ani": 77.68, "matched_fragments": 349, "total_fragments": 1437, "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": 77.6731, "matched_fragments": 340, "total_fragments": 1437, "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": 77.6706, "matched_fragments": 357, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesorhizobium silamurunense", "strain": "strain=CCBAU 01550", "accession": "GCA_014843825.1", "taxid": 499528, "species_taxid": 499528, "relation_to_type": "type", "validated": true, "ani": 77.6575, "matched_fragments": 361, "total_fragments": 1437, "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": 77.6143, "matched_fragments": 406, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquamicrobium lusatiense", "strain": "strain=DSM 11099", "accession": "GCA_014201615.1", "taxid": 89772, "species_taxid": 89772, "relation_to_type": "type", "validated": true, "ani": 77.5311, "matched_fragments": 294, "total_fragments": 1437, "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": 77.4582, "matched_fragments": 364, "total_fragments": 1437, "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": 77.3557, "matched_fragments": 363, "total_fragments": 1437, "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": 77.343, "matched_fragments": 267, "total_fragments": 1437, "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": 77.343, "matched_fragments": 267, "total_fragments": 1437, "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": 77.1997, "matched_fragments": 263, "total_fragments": 1437, "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": 77.1745, "matched_fragments": 252, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus limosus", "strain": "strain=JCM 17370", "accession": "GCA_009711185.1", "taxid": 913252, "species_taxid": 913252, "relation_to_type": "type", "validated": true, "ani": 76.6155, "matched_fragments": 74, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus litorisediminis", "strain": "strain=NBRC 112902", "accession": "GCA_009711205.1", "taxid": 2006130, "species_taxid": 2006130, "relation_to_type": "type", "validated": true, "ani": 76.1069, "matched_fragments": 85, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paroceanicella profunda", "strain": "strain=D4M1", "accession": "GCA_005887635.2", "taxid": 2579971, "species_taxid": 2579971, "relation_to_type": "type", "validated": true, "ani": 76.048, "matched_fragments": 75, "total_fragments": 1437, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003403035.1", "gtdb_species": "s__Mesorhizobium_G denitrificans", "ani": 100.0, "matched_fragments": 1437, "total_fragments": 1437, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Rhizobiaceae;g__Mesorhizobium_G", 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