{ "type": "genome", "identifier": "GCA_945903685.1", "organism": "Rhizobium sp. Q54", "title": "Rhizobium sp. Q54", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "BIOLOGY CENTRE ASCR, V.V.I., INSTITUTE OF HYDROBIO", "publication": [ {} ], "properties": { "assembly_accession": "GCA_945903685.1", "bioproject": "PRJEB35640", "biosample": "SAMEA110380426", "wgs_master": "CAMDOQ000000000.1", "refseq_category": "na", "taxid": "1335060", "species_taxid": "1335060", "organism_name": "Rhizobium sp. Q54", "infraspecific_name": "", "isolate": "TH-11nov19-65", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/09/10", "asm_name": "TH-11nov19-65", "submitter": "BIOLOGY CENTRE ASCR, V.V.I., INSTITUTE OF HYDROBIO", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/945/903/685/GCA_945903685.1_TH-11nov19-65", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-09-10", "dateModified": "2022-09-10", "datePublished": "2022-09-10", "_annotation": { "sample_count": 1, "sample_organism": [ "Rhizobium sp. Q54" ], "sample_taxid": [ "1335060" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Switzerland" ], "sample_host_location_id": [], "data_size": "0.655 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 93.31, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2376259", "Number of Sequences": "227", "Longest Sequences (bp)": "50071", "N50 (bp)": "13566", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.7", "Number of CDSs": "2171", "Average Protein Length": "299.6", "Coding Ratio (%)": "82.1", "Number of rRNAs": "0", "Number of tRNAs": "31", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Azospirillum ramasamyi", "strain": "strain=M2T2B2", "accession": "GCA_003233655.1", "taxid": 682998, "species_taxid": 682998, "relation_to_type": "type", "validated": true, "ani": 76.4488, "matched_fragments": 121, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stella humosa", "strain": "strain=ATCC 43930", "accession": "GCA_006738645.1", "taxid": 94, "species_taxid": 94, "relation_to_type": "type", "validated": true, "ani": 76.4011, "matched_fragments": 152, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hypericibacter terrae", "strain": "strain=R5913", "accession": "GCA_008728855.1", "taxid": 2602015, "species_taxid": 2602015, "relation_to_type": "type", "validated": true, "ani": 76.3325, "matched_fragments": 134, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hypericibacter adhaerens", "strain": "strain=R5959", "accession": "GCA_008728835.1", "taxid": 2602016, "species_taxid": 2602016, "relation_to_type": "type", "validated": true, "ani": 76.3293, "matched_fragments": 160, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stella humosa", "strain": "strain=DSM 5900", "accession": "GCA_003751345.1", "taxid": 94, "species_taxid": 94, "relation_to_type": "type", "validated": true, "ani": 76.3205, "matched_fragments": 159, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azospirillum picis", "strain": "strain=IMMIB TAR-3", "accession": "GCA_017876115.1", "taxid": 488438, "species_taxid": 488438, "relation_to_type": "type", "validated": true, "ani": 76.177, "matched_fragments": 145, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidiphilium multivorum", "strain": "strain=AIU301", "accession": "GCA_000964345.1", "taxid": 62140, "species_taxid": 62140, "relation_to_type": "type", "validated": true, "ani": 76.1758, "matched_fragments": 69, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azospirillum thiophilum", "strain": "strain=BV-S", "accession": "GCA_001305595.1", "taxid": 528244, "species_taxid": 528244, "relation_to_type": "type", "validated": true, "ani": 76.1586, "matched_fragments": 125, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azospirillum thiophilum", "strain": "strain=DSM 21654", "accession": "GCA_000960825.1", "taxid": 528244, "species_taxid": 528244, "relation_to_type": "type", "validated": true, "ani": 76.1449, "matched_fragments": 126, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassobaculum fulvum", "strain": "strain=KCTC 42651", "accession": "GCA_014652915.1", "taxid": 1633335, "species_taxid": 1633335, "relation_to_type": "type", "validated": true, "ani": 76.1394, "matched_fragments": 162, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Propylenella binzhouense", "strain": "strain=L72", "accession": "GCA_009866965.1", "taxid": 2555902, "species_taxid": 2555902, "relation_to_type": "type", "validated": true, "ani": 76.0981, "matched_fragments": 116, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Reyranella soli", "strain": "strain=NBRC 108950", "accession": "GCA_007992495.1", "taxid": 1230389, "species_taxid": 1230389, "relation_to_type": "type", "validated": true, "ani": 76.0734, "matched_fragments": 134, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oharaeibacter diazotrophicus", "strain": "strain=SM30", "accession": "GCA_011317485.1", "taxid": 1920512, "species_taxid": 1920512, "relation_to_type": "type", "validated": true, "ani": 76.0278, "matched_fragments": 131, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium japonicum", "strain": "strain=NBRC 14783", "accession": "GCA_006539645.1", "taxid": 375, "species_taxid": 375, "relation_to_type": "type", "validated": true, "ani": 75.9813, "matched_fragments": 115, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Skermanella mucosa", "strain": "strain=KEMB 2255-438", "accession": "GCA_016765655.2", "taxid": 1789672, "species_taxid": 1789672, "relation_to_type": "type", "validated": true, "ani": 75.9753, "matched_fragments": 139, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium japonicum", "strain": "strain=USDA 6", "accession": "GCA_000472985.1", "taxid": 375, "species_taxid": 375, "relation_to_type": "type", "validated": true, "ani": 75.9713, "matched_fragments": 116, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum sulfidophilum", "strain": "strain=DSM 1374", "accession": "GCA_001633165.1", "taxid": 35806, "species_taxid": 35806, "relation_to_type": "type", "validated": true, "ani": 75.9318, "matched_fragments": 57, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium crusticola", "strain": "strain=KCTC 52305", "accession": "GCA_022179145.1", "taxid": 1697972, "species_taxid": 1697972, "relation_to_type": "type", "validated": true, "ani": 75.8631, "matched_fragments": 133, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium crusticola", "strain": "strain=MIMD6", "accession": "GCA_003574465.1", "taxid": 1697972, "species_taxid": 1697972, "relation_to_type": "type", "validated": true, "ani": 75.8277, "matched_fragments": 122, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oharaeibacter diazotrophicus", "strain": "strain=DSM 102969", "accession": "GCA_004362745.1", "taxid": 1920512, "species_taxid": 1920512, "relation_to_type": "type", "validated": true, "ani": 75.8253, "matched_fragments": 164, "total_fragments": 689, "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": 75.7052, "matched_fragments": 69, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidiphilium iwatense", "strain": "strain=KCTC 23505", "accession": "GCA_021556475.1", "taxid": 768198, "species_taxid": 768198, "relation_to_type": "type", "validated": true, "ani": 75.7003, "matched_fragments": 57, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrimonas cliftonensis", "strain": "strain=DSM 15345", "accession": "GCA_900107585.1", "taxid": 89524, "species_taxid": 89524, "relation_to_type": "type", "validated": true, "ani": 75.6947, "matched_fragments": 93, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingosinicella humi", "strain": "strain=QZX222", "accession": "GCA_003129465.1", "taxid": 2068657, "species_taxid": 2068657, "relation_to_type": "type", "validated": true, "ani": 75.6496, "matched_fragments": 60, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Albimonas pacifica", "strain": "strain=CGMCC 1.11030", "accession": "GCA_900113695.1", "taxid": 1114924, "species_taxid": 1114924, "relation_to_type": "type", "validated": true, "ani": 75.609, "matched_fragments": 118, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kaustia mangrovi", "strain": "strain=R1DC25", "accession": "GCA_015482775.1", "taxid": 2593653, "species_taxid": 2593653, "relation_to_type": "type", "validated": true, "ani": 75.5567, "matched_fragments": 99, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas ginsenosidivorax", "strain": "strain=KHI67", "accession": "GCA_007995065.1", "taxid": 862135, "species_taxid": 862135, "relation_to_type": "type", "validated": true, "ani": 75.4545, "matched_fragments": 84, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium percolationis", "strain": "strain=c1", "accession": "GCA_020179425.1", "taxid": 2871811, "species_taxid": 2871811, "relation_to_type": "type", "validated": true, "ani": 75.4274, "matched_fragments": 52, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas corticis", "strain": "strain=36D10-4-7", "accession": "GCA_012035195.1", "taxid": 2722791, "species_taxid": 2722791, "relation_to_type": "type", "validated": true, "ani": 75.1933, "matched_fragments": 78, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agrococcus pavilionensis", "strain": "strain=RW1", "accession": "GCA_000400485.1", "taxid": 1346502, "species_taxid": 1346502, "relation_to_type": "type", "validated": true, "ani": 74.763, "matched_fragments": 50, "total_fragments": 689, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 93.31, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_016869275.1", "gtdb_species": "s__SHVV01 sp016869275", "ani": 90.3561, "matched_fragments": 575, "total_fragments": 689, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__SHVV01;f__SHVV01;g__SHVV01", "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": "GCA_009694095.1", "gtdb_species": "s__SHVV01 sp009694095", "ani": 77.8514, "matched_fragments": 154, "total_fragments": 689, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__SHVV01;f__SHVV01;g__SHVV01", "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": "GCA_016869765.1", "gtdb_species": "s__SHVP01 sp016869765", "ani": 77.0702, "matched_fragments": 93, "total_fragments": 689, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__SHVP01;f__SHVP01;g__SHVP01", "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_902729435.1", "gtdb_species": "s__Magnetospirillum sp902729435", "ani": 76.6989, "matched_fragments": 108, "total_fragments": 689, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodospirillales;f__Magnetospirillaceae;g__Magnetospirillum", "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": "GCA_016869145.1", "gtdb_species": "s__VGEU01 sp016869145", "ani": 76.6903, "matched_fragments": 198, "total_fragments": 689, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__MPNO01;f__VGEU01;g__VGEU01", "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": "GCA_009694165.1", "gtdb_species": "s__SHVP01 sp009694165", "ani": 76.6426, "matched_fragments": 55, "total_fragments": 689, "gtdb_taxonomy": 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"d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Kaistiaceae;g__Bauldia", "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": "GCA_003576705.1", "gtdb_species": "s__SYSU-D60015 sp003576705", "ani": 76.3237, "matched_fragments": 162, "total_fragments": 689, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Ferrovibrionales;f__Ferrovibrionaceae;g__SYSU-D60015", "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_008728835.1", "gtdb_species": "s__Hypericibacter adhaerens", "ani": 76.3187, "matched_fragments": 161, "total_fragments": 689, "gtdb_taxonomy": 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