{ "type": "genome", "identifier": "GCA_020161665.1", "organism": "Pseudomonadota bacterium", "title": "Pseudomonadota bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "University of Wisconsin-Madison", "publication": [ {} ], "properties": { "assembly_accession": "GCA_020161665.1", "bioproject": "PRJNA714686", "biosample": "SAMN21435392", "wgs_master": "JAIUPA000000000.1", "refseq_category": "na", "taxid": "1977087", "species_taxid": "1977087", "organism_name": "Pseudomonadota bacterium", "infraspecific_name": "", "isolate": "RHIZO2", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/09/27", "asm_name": "ASM2016166v1", "submitter": "University of Wisconsin-Madison", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/020/161/665/GCA_020161665.1_ASM2016166v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-09-27", "dateModified": "2021-09-27", "datePublished": "2021-09-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonadota bacterium" ], "sample_taxid": [ "1977087" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA:Madison, Wisconsin" ], "sample_host_location_id": [], "data_size": "0.946 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 66.67, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3385303", "Number of Sequences": "43", "Longest Sequences (bp)": "331795", "N50 (bp)": "121052", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.6", "Number of CDSs": "3125", "Average Protein Length": "317.0", "Coding Ratio (%)": "87.8", "Number of rRNAs": "0", "Number of tRNAs": "47", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Agrobacterium leguminum", "strain": "strain=MOPV5", "accession": "GCA_015704895.1", "taxid": 2792015, "species_taxid": 2792015, "relation_to_type": "type", "validated": true, "ani": 79.2876, "matched_fragments": 490, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shinella zoogloeoides", "strain": "strain=ATCC 19623", "accession": "GCA_020883495.1", "taxid": 352475, "species_taxid": 352475, "relation_to_type": "type", "validated": true, "ani": 79.0239, "matched_fragments": 460, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium rosettiformans", "strain": "strain=DSM 26376", "accession": "GCA_014202175.1", "taxid": 1368430, "species_taxid": 1368430, "relation_to_type": "type", "validated": true, "ani": 78.8618, "matched_fragments": 420, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium pseudoryzae", "strain": "strain=DSM 19479", "accession": "GCA_011046245.1", "taxid": 379684, "species_taxid": 379684, "relation_to_type": "type", "validated": true, "ani": 78.857, "matched_fragments": 480, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium oryzihabitans", "strain": "strain=M15", "accession": "GCA_010669145.1", "taxid": 2267833, "species_taxid": 2267833, "relation_to_type": "type", "validated": true, "ani": 78.8225, "matched_fragments": 489, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agrobacterium salinitolerans", "strain": "strain=YIC 5082", "accession": "GCA_002008225.1", "taxid": 1183413, "species_taxid": 1183413, "relation_to_type": "type", "validated": true, "ani": 78.8188, "matched_fragments": 470, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium pusense", "strain": "strain=LMG 25623", "accession": "GCA_900102105.1", "taxid": 648995, "species_taxid": 648995, "relation_to_type": "type", "validated": true, "ani": 78.723, "matched_fragments": 437, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium pusense", "strain": "strain=NRCPB10", "accession": "GCA_002008275.1", "taxid": 648995, "species_taxid": 648995, "relation_to_type": "type", "validated": true, "ani": 78.7086, "matched_fragments": 435, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shinella fusca", "strain": "strain=DSM 21319", "accession": "GCA_014203155.1", "taxid": 544480, "species_taxid": 544480, "relation_to_type": "type", "validated": true, "ani": 78.708, "matched_fragments": 467, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shinella oryzae", "strain": "strain=Z-25", "accession": "GCA_023038235.1", "taxid": 2871820, "species_taxid": 2871820, "relation_to_type": "type", "validated": true, "ani": 78.7007, "matched_fragments": 468, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neorhizobium vignae", "strain": "strain=CCBAU 05176", "accession": "GCA_000732195.1", "taxid": 690585, "species_taxid": 690585, "relation_to_type": "type", "validated": true, "ani": 78.6985, "matched_fragments": 451, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shinella sumterensis", "strain": "strain=MEC087", "accession": "GCA_004514425.2", "taxid": 1967501, "species_taxid": 1967501, "relation_to_type": "type", "validated": true, "ani": 78.6852, "matched_fragments": 474, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium wenxiniae", "strain": "strain=CGMCC 1.15279", "accession": "GCA_014641515.1", "taxid": 1737357, "species_taxid": 1737357, "relation_to_type": "type", "validated": true, "ani": 78.6763, "matched_fragments": 391, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium wuzhouense", "strain": "strain=W44", "accession": "GCA_003205195.1", "taxid": 1986026, "species_taxid": 1986026, "relation_to_type": "type", "validated": true, "ani": 78.6651, "matched_fragments": 421, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium metallidurans", "strain": "strain=DSM 26575", "accession": "GCA_014196505.1", "taxid": 1265931, "species_taxid": 1265931, "relation_to_type": "type", "validated": true, "ani": 78.6628, "matched_fragments": 423, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium wenxiniae", "strain": "strain=DSM 100734", "accession": "GCA_014201355.1", "taxid": 1737357, "species_taxid": 1737357, "relation_to_type": "type", "validated": true, "ani": 78.5899, "matched_fragments": 403, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ciceribacter thiooxidans", "strain": "strain=F43B", "accession": "GCA_014126615.1", "taxid": 1969821, "species_taxid": 1969821, "relation_to_type": "type", "validated": true, "ani": 78.5448, "matched_fragments": 394, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium chutanense", "strain": "strain=C5", "accession": "GCA_002531935.1", "taxid": 2035448, "species_taxid": 2035448, "relation_to_type": "type", "validated": true, "ani": 78.5412, "matched_fragments": 439, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neorhizobium galegae", "strain": "strain=HAMBI 540", "accession": "GCA_000731315.1", "taxid": 399, "species_taxid": 399, "relation_to_type": "suspected-type", "validated": true, "ani": 78.4509, "matched_fragments": 431, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium binae", "strain": "strain=BLR195", "accession": "GCA_017357225.1", "taxid": 1138190, "species_taxid": 1138190, "relation_to_type": "type", "validated": true, "ani": 78.4416, "matched_fragments": 418, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium indicum", "strain": "strain=JKLM 12A2", "accession": "GCA_005862305.2", "taxid": 2583231, "species_taxid": 2583231, "relation_to_type": "type", "validated": true, "ani": 78.4382, "matched_fragments": 446, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium glycinendophyticum", "strain": "strain=CL12", "accession": "GCA_006443685.1", "taxid": 2589807, "species_taxid": 2589807, "relation_to_type": "type", "validated": true, "ani": 78.4179, "matched_fragments": 411, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium ecuadorense", "strain": "strain=CNPSO 671", "accession": "GCA_001187535.1", "taxid": 1671795, "species_taxid": 1671795, "relation_to_type": "type", "validated": true, "ani": 78.416, "matched_fragments": 447, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium ruizarguesonis", "strain": "strain=UPM1133", "accession": "GCA_012349115.1", "taxid": 2081791, "species_taxid": 2081791, "relation_to_type": "type", "validated": true, "ani": 78.3947, "matched_fragments": 441, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium binae", "strain": "strain=BLR195", "accession": "GCA_019684455.1", "taxid": 1138190, "species_taxid": 1138190, "relation_to_type": "type", "validated": true, "ani": 78.3835, "matched_fragments": 427, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ciceribacter ferrooxidans", "strain": "strain=F8825", "accession": "GCA_004137355.1", "taxid": 2509717, "species_taxid": 2509717, "relation_to_type": "type", "validated": true, "ani": 78.3396, "matched_fragments": 418, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium rhizophilum", "strain": "strain=7209-2", "accession": "GCA_004912145.1", "taxid": 1850373, "species_taxid": 1850373, "relation_to_type": "type", "validated": true, "ani": 78.3394, "matched_fragments": 420, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neorhizobium alkalisoli", "strain": "strain=DSM 21826", "accession": "GCA_002968635.1", "taxid": 528178, "species_taxid": 528178, "relation_to_type": "type", "validated": true, "ani": 78.3348, "matched_fragments": 373, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium multihospitium", "strain": "strain=HAMBI 2975", "accession": "GCA_900094585.1", "taxid": 410764, "species_taxid": 410764, "relation_to_type": "type", "validated": true, "ani": 78.276, "matched_fragments": 432, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium grahamii", "strain": "strain=CCGE 502", "accession": "GCA_000298315.2", "taxid": 1120045, "species_taxid": 1120045, "relation_to_type": "type", "validated": true, "ani": 78.2397, "matched_fragments": 328, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium fabae", "strain": "strain=CCBAU 33202", "accession": "GCA_003985135.1", "taxid": 573179, "species_taxid": 573179, "relation_to_type": "type", "validated": true, "ani": 78.2262, "matched_fragments": 445, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium vallis", "strain": "strain=CCBAU 65647", "accession": "GCA_003985155.1", "taxid": 634290, "species_taxid": 634290, "relation_to_type": "type", "validated": true, "ani": 78.1634, "matched_fragments": 435, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobium mongolense subsp. loessense", "strain": "strain=CGMCC 1.3401", "accession": "GCA_900099775.1", "taxid": 158890, "species_taxid": 57676, "relation_to_type": "type", "validated": true, "ani": 77.9411, "matched_fragments": 366, "total_fragments": 1105, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 66.67, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014196535.1", "gtdb_species": "s__Rhizobium_B borbori", "ani": 81.3069, "matched_fragments": 756, "total_fragments": 1105, 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