{ "type": "genome", "identifier": "GCA_018897315.1", "organism": "Pseudomonadota bacterium", "title": "Pseudomonadota 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_018897315.1", "bioproject": "PRJNA627556", "biosample": "SAMN19297577", "wgs_master": "JAHIKW000000000.1", "refseq_category": "na", "taxid": "1977087", "species_taxid": "1977087", "organism_name": "Pseudomonadota bacterium", "infraspecific_name": "", "isolate": "KR13_N1.mb.71", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/06/16", "asm_name": "ASM1889731v1", "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/018/897/315/GCA_018897315.1_ASM1889731v1", "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": [ "Pseudomonadota bacterium" ], "sample_taxid": [ "1977087" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Finland" ], "sample_host_location_id": [], "data_size": "1.114 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 83.33, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "4020540", "Number of Sequences": "26", "Longest Sequences (bp)": "518959", "N50 (bp)": "235026", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.9", "Number of CDSs": "3696", "Average Protein Length": "324.6", "Coding Ratio (%)": "89.5", "Number of rRNAs": "1", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Desulfarculus baarsii", "strain": "strain=DSM 2075", "accession": "GCA_000143965.1", "taxid": 453230, "species_taxid": 453230, "relation_to_type": "type", "validated": true, "ani": 77.7697, "matched_fragments": 372, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dethiosulfatarculus sandiegensis", "strain": "strain=SPR", "accession": "GCA_000931935.2", "taxid": 1429043, "species_taxid": 1429043, "relation_to_type": "type", "validated": true, "ani": 76.6959, "matched_fragments": 132, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfacinum infernum", "strain": "strain=DSM 9756", "accession": "GCA_900129305.1", "taxid": 35837, "species_taxid": 35837, "relation_to_type": "type", "validated": true, "ani": 75.9966, "matched_fragments": 88, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio sulfodismutans", "strain": "strain=DSM 3696", "accession": "GCA_010499425.1", "taxid": 63561, "species_taxid": 63561, "relation_to_type": "type", "validated": true, "ani": 75.96, "matched_fragments": 119, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fundidesulfovibrio magnetotacticus", "strain": "strain=FSS-1", "accession": "GCA_013019105.1", "taxid": 2730080, "species_taxid": 2730080, "relation_to_type": "type", "validated": true, "ani": 75.9361, "matched_fragments": 172, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio sulfodismutans", "strain": "strain=DSM 3696", "accession": "GCA_013376455.1", "taxid": 63561, "species_taxid": 63561, "relation_to_type": "type", "validated": true, "ani": 75.928, "matched_fragments": 125, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio indicus", "strain": "strain=DSM 101483", "accession": "GCA_004365595.1", "taxid": 1716143, "species_taxid": 1716143, "relation_to_type": "type", "validated": true, "ani": 75.8765, "matched_fragments": 131, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio indicus", "strain": "strain=J2", "accession": "GCA_001563225.1", "taxid": 1716143, "species_taxid": 1716143, "relation_to_type": "type", "validated": true, "ani": 75.854, "matched_fragments": 131, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deferrisoma camini", "strain": "strain=S3R1", "accession": "GCA_000526155.1", "taxid": 1035120, "species_taxid": 1035120, "relation_to_type": "type", "validated": true, "ani": 75.8034, "matched_fragments": 149, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfacinum hydrothermale", "strain": "strain=DSM 13146", "accession": "GCA_900176285.1", "taxid": 109258, "species_taxid": 109258, "relation_to_type": "type", "validated": true, "ani": 75.7815, "matched_fragments": 72, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudodesulfovibrio mercurii", "strain": "strain=ND132", "accession": "GCA_000189295.2", "taxid": 641491, "species_taxid": 641491, "relation_to_type": "type", "validated": true, "ani": 75.7814, "matched_fragments": 141, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dissulfurirhabdus thermomarina", "strain": "strain=SH388", "accession": "GCA_012979235.1", "taxid": 1765737, "species_taxid": 1765737, "relation_to_type": "type", "validated": true, "ani": 75.758, "matched_fragments": 93, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dissulfurirhabdus thermomarina", "strain": "strain=DSM 100025", "accession": "GCA_010499435.1", "taxid": 1765737, "species_taxid": 1765737, "relation_to_type": "type", "validated": true, "ani": 75.6931, "matched_fragments": 91, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfatibacillum alkenivorans", "strain": "strain=DSM 16219", "accession": "GCA_900142135.1", "taxid": 259354, "species_taxid": 259354, "relation_to_type": "type", "validated": true, "ani": 75.674, "matched_fragments": 75, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfatibacillum aliphaticivorans", "strain": "strain=DSM 15576", "accession": "GCA_000429905.1", "taxid": 218208, "species_taxid": 218208, "relation_to_type": "type", "validated": true, "ani": 75.3979, "matched_fragments": 76, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stigmatella erecta", "strain": "strain=DSM 16858", "accession": "GCA_900111745.1", "taxid": 83460, "species_taxid": 83460, "relation_to_type": "type", "validated": true, "ani": 75.0285, "matched_fragments": 129, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Caulobacter soli", "strain": "strain=Ji-3-8", "accession": "GCA_011045195.1", "taxid": 2708539, "species_taxid": 2708539, "relation_to_type": "type", "validated": true, "ani": 74.738, "matched_fragments": 85, "total_fragments": 1326, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 83.33, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_018896025.1", "gtdb_species": "s__SURF-10 sp018896025", "ani": 99.9915, "matched_fragments": 1312, "total_fragments": 1326, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfarculia;o__Desulfarculales;f__Desulfarculaceae;g__SURF-10", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.58", "min_intra_species_ani": "98.82", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCA_018902755.1", "gtdb_species": "s__SURF-10 sp018902755", "ani": 93.6246, "matched_fragments": 1131, "total_fragments": 1326, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfarculia;o__Desulfarculales;f__Desulfarculaceae;g__SURF-10", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.96", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.96", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_018819925.1", "gtdb_species": "s__SURF-10 sp018819925", "ani": 86.923, "matched_fragments": 911, "total_fragments": 1326, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfarculia;o__Desulfarculales;f__Desulfarculaceae;g__SURF-10", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.87", "min_intra_species_ani": "99.83", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_003605055.1", "gtdb_species": "s__SURF-10 sp003605055", "ani": 81.1391, "matched_fragments": 645, "total_fragments": 1326, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfarculia;o__Desulfarculales;f__Desulfarculaceae;g__SURF-10", "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_016218705.1", "gtdb_species": "s__JACRDC01 sp016218705", "ani": 79.0216, "matched_fragments": 536, "total_fragments": 1326, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfarculia;o__Desulfarculales;f__Desulfarculaceae;g__JACRDC01", "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_001184205.1", "gtdb_species": "s__Desulfocarbo indianensis", "ani": 78.9833, "matched_fragments": 501, "total_fragments": 1326, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfarculia;o__Desulfarculales;f__Desulfarculaceae;g__Desulfocarbo", "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_015488275.1", "gtdb_species": "s__S012-135 sp015488275", "ani": 75.348, "matched_fragments": 57, "total_fragments": 1326, "gtdb_taxonomy": "d__Bacteria;p__Desulfobacterota;c__Desulfobulbia;o__Desulfobulbales;f__S012-135;g__S012-135", "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": "-" } ] }, "_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__Desulfobacterota", "c__Desulfarculia", "o__Desulfarculales", "f__Desulfarculaceae", "g__SURF-10", "s__SURF-10 sp018896025" ], "_genome_taxon": [ "Pseudomonadota", "bacterium", "d__Bacteria", "p__Desulfobacterota", "c__Desulfarculia", "o__Desulfarculales", "f__Desulfarculaceae", "g__SURF-10", "s__SURF-10 sp018896025", "Bacteria", "Desulfobacterota", "Desulfarculia", "Desulfarculales", "Desulfarculaceae", "SURF-10", "SURF-10", "sp018896025" ], "_meo": [ { "id": "MEO_0000366", "label": "ground water" } ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }