{ "type": "genome", "identifier": "GCA_018899205.1", "organism": "Gammaproteobacteria bacterium", "title": "Gammaproteobacteria bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Department of Ecology and Genetics, Limnology and Science for Life Laboratory, Uppsala University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_018899205.1", "bioproject": "PRJNA627556", "biosample": "SAMN19297518", "wgs_master": "JAHIIP000000000.1", "refseq_category": "na", "taxid": "1913989", "species_taxid": "1913989", "organism_name": "Gammaproteobacteria bacterium", "infraspecific_name": "", "isolate": "KR11_S3.mb.44", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/06/16", "asm_name": "ASM1889920v1", "submitter": "Department of Ecology and Genetics, Limnology and Science for Life Laboratory, Uppsala University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/018/899/205/GCA_018899205.1_ASM1889920v1", "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": "2021-06-16", "dateModified": "2021-06-16", "datePublished": "2021-06-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Gammaproteobacteria bacterium" ], "sample_taxid": [ "1913989" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Finland" ], "sample_host_location_id": [], "data_size": "1.008 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 83.33, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3592735", "Number of Sequences": "23", "Longest Sequences (bp)": "540046", "N50 (bp)": "272373", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.8", "Number of CDSs": "3415", "Average Protein Length": "320.3", "Coding Ratio (%)": "91.3", "Number of rRNAs": "0", "Number of tRNAs": "41", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sulfurisoma sediminicola", "strain": "strain=BSN1", "accession": "GCA_003865015.1", "taxid": 1381557, "species_taxid": 1381557, "relation_to_type": "type", "validated": true, "ani": 79.5258, "matched_fragments": 405, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfurisoma sediminicola", "strain": "strain=DSM 26916", "accession": "GCA_003663955.1", "taxid": 1381557, "species_taxid": 1381557, "relation_to_type": "type", "validated": true, "ani": 79.483, "matched_fragments": 406, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sterolibacterium denitrificans", "strain": "strain=DSM 13999", "accession": "GCA_001586935.1", "taxid": 157592, "species_taxid": 157592, "relation_to_type": "type", "validated": true, "ani": 77.9952, "matched_fragments": 81, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Denitratisoma oestradiolicum", "strain": "strain=DSM 16959", "accession": "GCA_902813185.1", "taxid": 311182, "species_taxid": 311182, "relation_to_type": "type", "validated": true, "ani": 77.8269, "matched_fragments": 236, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Denitratisoma oestradiolicum", "strain": "strain=DSM 16959", "accession": "GCA_007844305.1", "taxid": 311182, "species_taxid": 311182, "relation_to_type": "type", "validated": true, "ani": 77.82, "matched_fragments": 231, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera butanivorans", "strain": "strain=NBRC 103042", "accession": "GCA_001591165.1", "taxid": 86174, "species_taxid": 86174, "relation_to_type": "type", "validated": true, "ani": 77.7833, "matched_fragments": 259, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Georgfuchsia toluolica", "strain": "strain=G5G6", "accession": "GCA_907163265.1", "taxid": 424218, "species_taxid": 424218, "relation_to_type": "type", "validated": true, "ani": 77.5066, "matched_fragments": 238, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aromatoleum tolulyticum", "strain": "strain=ATCC 51758", "accession": "GCA_900156155.1", "taxid": 34027, "species_taxid": 34027, "relation_to_type": "type", "validated": true, "ani": 77.346, "matched_fragments": 241, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodocyclus purpureus", "strain": "strain=DSM 168", "accession": "GCA_016653115.1", "taxid": 1067, "species_taxid": 1067, "relation_to_type": "type", "validated": true, "ani": 77.296, "matched_fragments": 235, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera linaloolentis", "strain": "strain=DSM 12138", "accession": "GCA_000621305.1", "taxid": 76112, "species_taxid": 76112, "relation_to_type": "type", "validated": true, "ani": 77.2894, "matched_fragments": 247, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera linaloolentis", "strain": "strain=47Lol = DSM 12138", "accession": "GCA_000310205.1", "taxid": 76112, "species_taxid": 76112, "relation_to_type": "type", "validated": true, "ani": 77.2637, "matched_fragments": 238, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methyloversatilis universalis", "strain": "strain=FAM5", "accession": "GCA_000214035.3", "taxid": 378211, "species_taxid": 378211, "relation_to_type": "type", "validated": true, "ani": 77.2013, "matched_fragments": 212, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aromatoleum toluolicum", "strain": "strain=T", "accession": "GCA_012911005.2", "taxid": 90060, "species_taxid": 90060, "relation_to_type": "type", "validated": true, "ani": 77.1549, "matched_fragments": 241, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aromatoleum anaerobium", "strain": "strain=LuFRes1", "accession": "GCA_012910705.2", "taxid": 182180, "species_taxid": 182180, "relation_to_type": "type", "validated": true, "ani": 77.108, "matched_fragments": 203, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrogeniibacter mangrovi", "strain": "strain=M9-3-2", "accession": "GCA_010983895.1", "taxid": 2016596, "species_taxid": 2016596, "relation_to_type": "type", "validated": true, "ani": 76.8996, "matched_fragments": 229, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aromatoleum buckelii", "strain": "strain=U120", "accession": "GCA_012910785.2", "taxid": 200254, "species_taxid": 200254, "relation_to_type": "type", "validated": true, "ani": 76.8252, "matched_fragments": 187, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrogeniibacter aestuarii", "strain": "strain=H1-1-2A", "accession": "GCA_017309585.1", "taxid": 2815343, "species_taxid": 2815343, "relation_to_type": "type", "validated": true, "ani": 76.7286, "matched_fragments": 134, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Crenobacter cavernae", "strain": "strain=K1W11S-77", "accession": "GCA_003355495.1", "taxid": 2290923, "species_taxid": 2290923, "relation_to_type": "type", "validated": true, "ani": 76.5313, "matched_fragments": 126, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cupriavidus malaysiensis", "strain": "strain=USMAA1020", "accession": "GCA_001854325.1", "taxid": 367825, "species_taxid": 367825, "relation_to_type": "type", "validated": true, "ani": 76.4649, "matched_fragments": 193, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas fakonensis", "strain": "strain=COW40", "accession": "GCA_019139895.1", "taxid": 2842355, "species_taxid": 2842355, "relation_to_type": "type", "validated": true, "ani": 75.5956, "matched_fragments": 86, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 83.33, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_013791905.1", "gtdb_species": "s__UBA2250 sp013791905", "ani": 99.9996, "matched_fragments": 1184, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__UBA2250", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.99", "num_clustered_genomes": 7, "status": "conclusive" }, { "accession": "GCA_002347405.1", "gtdb_species": "s__UBA2250 sp002347405", "ani": 87.3893, "matched_fragments": 824, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__UBA2250", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.89", "min_intra_species_ani": "99.89", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002347285.1", "gtdb_species": "s__UBA2250 sp002347285", "ani": 80.008, "matched_fragments": 484, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__UBA2250", "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_018333815.1", "gtdb_species": "s__UBA2250 sp018333815", "ani": 79.7647, "matched_fragments": 332, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__UBA2250", "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_011391215.1", "gtdb_species": "s__UBA2250 sp011391215", "ani": 79.5827, "matched_fragments": 371, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__UBA2250", "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_013426785.1", "gtdb_species": "s__UBA2250 sp013426785", "ani": 79.4977, "matched_fragments": 420, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__UBA2250", "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_003865015.1", "gtdb_species": "s__Sulfurisoma sediminicola", "ani": 79.4946, "matched_fragments": 408, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Sulfurisoma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_903950295.1", "gtdb_species": "s__UBA2250 sp903950295", "ani": 79.4429, "matched_fragments": 312, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__UBA2250", "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_000828635.1", "gtdb_species": "s__Sulfuritalea hydrogenivorans", "ani": 79.2877, "matched_fragments": 384, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Sulfuritalea", "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_018825305.1", "gtdb_species": "s__Sulfurisoma sp018825305", "ani": 79.2315, "matched_fragments": 460, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Sulfurisoma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_011330945.1", "gtdb_species": "s__UBA2250 sp011330945", "ani": 79.2147, "matched_fragments": 437, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__UBA2250", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.90", "min_intra_species_ani": "99.90", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_903930805.1", "gtdb_species": "s__UBA2250 sp903930805", "ani": 79.1997, "matched_fragments": 363, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__UBA2250", "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_004323595.1", "gtdb_species": "s__UBA2250 sp004323595", "ani": 78.7927, "matched_fragments": 413, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__UBA2250", "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_016235765.1", "gtdb_species": "s__Fen-999 sp016235765", "ani": 78.4801, "matched_fragments": 339, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Fen-999", "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_012026675.1", "gtdb_species": "s__Sulfuritalea sp012026675", "ani": 78.1312, "matched_fragments": 271, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Sulfuritalea", "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_903932755.1", "gtdb_species": "s__Sulfuritalea sp903932755", "ani": 77.7229, "matched_fragments": 175, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Sulfuritalea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.78", "min_intra_species_ani": "98.78", "mean_intra_species_af": "0.75", "min_intra_species_af": "0.75", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Rhodocyclaceae", "g__Sulfuricystis", "s__Sulfuricystis sp013791905" ], "_genome_taxon": [ "Gammaproteobacteria", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Rhodocyclaceae", "g__Sulfuricystis", "s__Sulfuricystis sp013791905", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Burkholderiales", "Rhodocyclaceae", "Sulfuricystis", "Sulfuricystis", "sp013791905" ], "_meo": [ { "id": "MEO_0000366", "label": "ground water" } ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }