{ "type": "genome", "identifier": "GCA_903829475.1", "organism": "uncultured Hyphomicrobiales bacterium", "title": "uncultured Hyphomicrobiales bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "BILS", "publication": [ {} ], "properties": { "assembly_accession": "GCA_903829475.1", "bioproject": "PRJEB38681", "biosample": "SAMEA6946968", "wgs_master": "CAIKQA000000000.1", "refseq_category": "na", "taxid": "208549", "species_taxid": "208549", "organism_name": "uncultured Hyphomicrobiales bacterium", "infraspecific_name": "", "isolate": "Umea3p2_bin-0189", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/19", "asm_name": "freshwater MAG --- Umea3p2_bin-0189", "submitter": "BILS", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/903/829/475/GCA_903829475.1_freshwater_MAG_---_Umea3p2_bin-0189", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-19", "dateModified": "2020-07-19", "datePublished": "2020-07-19", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Hyphomicrobiales bacterium" ], "sample_taxid": [ "208549" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Sweden" ], "sample_host_location_id": [], "data_size": "1.173 MB", "sample_ph_range": { "min": 476.0, "max": 476.0 }, "sample_temperature_range": { "min": 43.0, "max": 43.0 }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4243950", "Number of Sequences": "275", "Longest Sequences (bp)": "104976", "N50 (bp)": "27476", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.1", "Number of CDSs": "3813", "Average Protein Length": "316.5", "Coding Ratio (%)": "85.3", "Number of rRNAs": "1", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Chelatococcus caeni", "strain": "strain=DSM 103737", "accession": "GCA_014196925.1", "taxid": 1348468, "species_taxid": 1348468, "relation_to_type": "type", "validated": true, "ani": 77.4158, "matched_fragments": 264, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylovirgula ligni", "strain": "strain=BW863", "accession": "GCA_003387225.1", "taxid": 569860, "species_taxid": 569860, "relation_to_type": "type", "validated": true, "ani": 77.2023, "matched_fragments": 189, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylovirgula ligni", "strain": "strain=BW863", "accession": "GCA_004135935.1", "taxid": 569860, "species_taxid": 569860, "relation_to_type": "type", "validated": true, "ani": 77.1532, "matched_fragments": 188, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phreatobacter cathodiphilus", "strain": "strain=S-12", "accession": "GCA_003008515.1", "taxid": 1868589, "species_taxid": 1868589, "relation_to_type": "type", "validated": true, "ani": 77.0552, "matched_fragments": 249, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium nitroreducens", "strain": "strain=TSA1", "accession": "GCA_002776695.1", "taxid": 709803, "species_taxid": 709803, "relation_to_type": "type", "validated": true, "ani": 77.0515, "matched_fragments": 257, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylocystis hirsuta", "strain": "strain=CSC1", "accession": "GCA_003722355.1", "taxid": 369798, "species_taxid": 369798, "relation_to_type": "type", "validated": true, "ani": 77.0236, "matched_fragments": 216, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseiarcus fermentans", "strain": "strain=DSM 24875", "accession": "GCA_003315135.1", "taxid": 1473586, "species_taxid": 1473586, "relation_to_type": "type", "validated": true, "ani": 76.9994, "matched_fragments": 314, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lichenibacterium minor", "strain": "strain=RmlP026", "accession": "GCA_004137685.1", "taxid": 2316528, "species_taxid": 2316528, "relation_to_type": "type", "validated": true, "ani": 76.9963, "matched_fragments": 258, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium elkanii", "strain": "strain=USDA 76", "accession": "GCA_023278185.1", "taxid": 29448, "species_taxid": 29448, "relation_to_type": "type", "validated": true, "ani": 76.995, "matched_fragments": 254, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylocystis rosea", "strain": "strain=SV97", "accession": "GCA_000372845.1", "taxid": 173366, "species_taxid": 173366, "relation_to_type": "type", "validated": true, "ani": 76.9877, "matched_fragments": 203, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodoblastus acidophilus", "strain": "strain=DSM 137", "accession": "GCA_003258765.1", "taxid": 1074, "species_taxid": 1074, "relation_to_type": "suspected-type", "validated": true, "ani": 76.9867, "matched_fragments": 271, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodoblastus acidophilus", "strain": "strain=DSM 137", "accession": "GCA_900187365.1", "taxid": 1074, "species_taxid": 1074, "relation_to_type": "suspected-type", "validated": true, "ani": 76.9864, "matched_fragments": 271, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylosinus trichosporium", "strain": "strain=OB3b", "accession": "GCA_000178815.2", "taxid": 426, "species_taxid": 426, "relation_to_type": "type", "validated": true, "ani": 76.9829, "matched_fragments": 289, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodoblastus acidophilus", "strain": "strain=DSM 137", "accession": "GCA_002937135.1", "taxid": 1074, "species_taxid": 1074, "relation_to_type": "suspected-type", "validated": true, "ani": 76.9737, "matched_fragments": 276, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium oropedii", "strain": "strain=Pear76", "accession": "GCA_020889685.1", "taxid": 1571201, "species_taxid": 1571201, "relation_to_type": "type", "validated": true, "ani": 76.967, "matched_fragments": 229, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylocystis silviterrae", "strain": "strain=FS", "accession": "GCA_013350005.1", "taxid": 2743612, "species_taxid": 2743612, "relation_to_type": "type", "validated": true, "ani": 76.9503, "matched_fragments": 214, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga alba", "strain": "strain=BT350", "accession": "GCA_015694465.1", "taxid": 2791025, "species_taxid": 2791025, "relation_to_type": "type", "validated": true, "ani": 76.9501, "matched_fragments": 145, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium indicum", "strain": "strain=SE2.11", "accession": "GCA_001043895.1", "taxid": 1775910, "species_taxid": 1775910, "relation_to_type": "type", "validated": true, "ani": 76.8987, "matched_fragments": 251, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bradyrhizobium viridifuturi", "strain": "strain=SEMIA 690", "accession": "GCA_001238275.1", "taxid": 1654716, "species_taxid": 1654716, "relation_to_type": "type", "validated": true, "ani": 76.8985, "matched_fragments": 247, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium oryzihabitans", "strain": "strain=TER-1", "accession": "GCA_004004555.2", "taxid": 2499852, "species_taxid": 2499852, "relation_to_type": "type", "validated": true, "ani": 76.8607, "matched_fragments": 290, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium terrae", "strain": "strain=17Sr1-28", "accession": "GCA_003173755.1", "taxid": 2202827, "species_taxid": 2202827, "relation_to_type": "type", "validated": true, "ani": 76.8253, "matched_fragments": 270, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium terricola", "strain": "strain=17Sr1-39", "accession": "GCA_006151805.1", "taxid": 2583531, "species_taxid": 2583531, "relation_to_type": "type", "validated": true, "ani": 76.8209, "matched_fragments": 270, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium ajmalii", "strain": "strain=IF7SW-B2", "accession": "GCA_016613415.1", "taxid": 2738439, "species_taxid": 2738439, "relation_to_type": "type", "validated": true, "ani": 76.7225, "matched_fragments": 268, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium currus", "strain": "strain=PR1016A", "accession": "GCA_003058325.1", "taxid": 2051553, "species_taxid": 2051553, "relation_to_type": "type", "validated": true, "ani": 76.6802, "matched_fragments": 275, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methyloferula stellata", "strain": "strain=AR4T", "accession": "GCA_000385335.1", "taxid": 876270, "species_taxid": 876270, "relation_to_type": "type", "validated": true, "ani": 76.6565, "matched_fragments": 163, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium goesingense", "strain": "strain=DSM 21331", "accession": "GCA_022179225.1", "taxid": 243690, "species_taxid": 243690, "relation_to_type": "type", "validated": true, "ani": 76.6043, "matched_fragments": 183, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Variibacter gotjawalensis", "strain": "strain=GJW-30", "accession": "GCA_002355335.1", "taxid": 1333996, "species_taxid": 1333996, "relation_to_type": "type", "validated": true, "ani": 76.5388, "matched_fragments": 175, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Variibacter gotjawalensis", "strain": "strain=DSM 29671", "accession": "GCA_004216635.1", "taxid": 1333996, "species_taxid": 1333996, "relation_to_type": "type", "validated": true, "ani": 76.5141, "matched_fragments": 175, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Variibacter gotjawalensis", "strain": "strain=CECT 8514", "accession": "GCA_011761465.1", "taxid": 1333996, "species_taxid": 1333996, "relation_to_type": "type", "validated": true, "ani": 76.5129, "matched_fragments": 174, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylocapsa aurea", "strain": "strain=KYG", "accession": "GCA_000746085.1", "taxid": 663610, "species_taxid": 663610, "relation_to_type": "type", "validated": true, "ani": 76.5056, "matched_fragments": 163, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kaistia adipata", "strain": "strain=DSM 17808", "accession": "GCA_000423225.1", "taxid": 166954, "species_taxid": 166954, "relation_to_type": "type", "validated": true, "ani": 76.5028, "matched_fragments": 248, "total_fragments": 1269, "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": 76.4895, "matched_fragments": 296, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azorhizobium doebereinerae", "strain": "strain=UFLA1-100", "accession": "GCA_000473085.1", "taxid": 281091, "species_taxid": 281091, "relation_to_type": "type", "validated": true, "ani": 76.3727, "matched_fragments": 227, "total_fragments": 1269, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_903825465.1", "gtdb_species": "s__28-YEA-48 sp903825465", "ani": 98.7096, "matched_fragments": 1096, "total_fragments": 1269, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__28-YEA-48", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.01", "min_intra_species_ani": "98.69", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCA_903861645.1", "gtdb_species": "s__28-YEA-48 sp903861645", "ani": 79.4924, "matched_fragments": 653, "total_fragments": 1269, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__28-YEA-48", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.51", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_903885755.1", "gtdb_species": "s__28-YEA-48 sp903885755", "ani": 78.6939, "matched_fragments": 493, "total_fragments": 1269, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__28-YEA-48", "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_903884435.1", "gtdb_species": "s__28-YEA-48 sp903884435", "ani": 78.0655, "matched_fragments": 537, "total_fragments": 1269, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__28-YEA-48", "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": 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77.4495, "matched_fragments": 261, "total_fragments": 1269, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Chelatococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.75", "min_intra_species_ani": "98.72", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.95", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_903847605.1", "gtdb_species": "s__28-YEA-48 sp903847605", "ani": 77.2934, "matched_fragments": 296, "total_fragments": 1269, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__28-YEA-48", "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_903916165.1", "gtdb_species": "s__28-YEA-48 sp903916165", "ani": 77.2539, "matched_fragments": 183, 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