{ "type": "genome", "identifier": "GCA_018065825.1", "organism": "Comamonas sp.", "title": "Comamonas sp.", "description": "derived from metagenome; fragmented assembly", "data type": "Genome sequencing and assembly", "organization": "Quadram Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCA_018065825.1", "bioproject": "PRJNA590977", "biosample": "SAMN18472472", "wgs_master": "JAGHSN000000000.1", "refseq_category": "na", "taxid": "34028", "species_taxid": "34028", "organism_name": "Comamonas sp.", "infraspecific_name": "", "isolate": "E2_118", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/04/17", "asm_name": "ASM1806582v1", "submitter": "Quadram Institute", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/018/065/825/GCA_018065825.1_ASM1806582v1", "excluded_from_refseq": "derived from metagenome; fragmented assembly", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-04-17", "dateModified": "2021-04-17", "datePublished": "2021-04-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Comamonas sp." ], "sample_taxid": [ "34028" ], "sample_host_organism": [ "Equus ferus caballus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom:Surrey" ], "sample_host_location_id": [], "data_size": "0.746 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 59.02, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2601641", "Number of Sequences": "1036", "Longest Sequences (bp)": "13395", "N50 (bp)": "2968", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.2", "Number of CDSs": "1689", "Average Protein Length": "260.9", "Coding Ratio (%)": "50.8", "Number of rRNAs": "0", "Number of tRNAs": "44", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Comamonas avium", "strain": "strain=Sa2CVA6", "accession": "GCA_014836675.1", "taxid": 2762231, "species_taxid": 2762231, "relation_to_type": "type", "validated": true, "ani": 81.0542, "matched_fragments": 217, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Comamonas aquatica", "strain": "strain=NBRC 14918", "accession": "GCA_000739875.1", "taxid": 225991, "species_taxid": 225991, "relation_to_type": "type", "validated": true, "ani": 80.7516, "matched_fragments": 228, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Comamonas kerstersii", "strain": "strain=CCUG 15333", "accession": "GCA_008801935.1", "taxid": 225992, "species_taxid": 225992, "relation_to_type": "type", "validated": true, "ani": 80.2645, "matched_fragments": 220, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Comamonas terrigena", "strain": "strain=NCTC1937", "accession": "GCA_900461435.1", "taxid": 32013, "species_taxid": 32013, "relation_to_type": "type", "validated": true, "ani": 79.1062, "matched_fragments": 187, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Comamonas fluminis", "strain": "strain=CJ34", "accession": "GCA_019186805.1", "taxid": 2796366, "species_taxid": 2796366, "relation_to_type": "type", "validated": true, "ani": 78.6926, "matched_fragments": 144, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Comamonas suwonensis", "strain": "strain=EJ-4", "accession": "GCA_012844455.2", "taxid": 2606214, "species_taxid": 2606214, "relation_to_type": "type", "validated": true, "ani": 78.276, "matched_fragments": 148, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Comamonas phosphati", "strain": "strain=CGMCC 1.12294", "accession": "GCA_014637085.1", "taxid": 1211803, "species_taxid": 1211803, "relation_to_type": "type", "validated": true, "ani": 78.192, "matched_fragments": 141, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Comamonas terrae", "strain": "strain=NBRC 106524", "accession": "GCA_001544075.1", "taxid": 673548, "species_taxid": 673548, "relation_to_type": "type", "validated": true, "ani": 78.1631, "matched_fragments": 158, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Comamonas koreensis", "strain": "strain=KCTC 12005", "accession": "GCA_021026195.1", "taxid": 160825, "species_taxid": 160825, "relation_to_type": "type", "validated": true, "ani": 78.0969, "matched_fragments": 115, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidovorax carolinensis", "strain": "strain=NA3", "accession": "GCA_002157145.1", "taxid": 553814, "species_taxid": 553814, "relation_to_type": "type", "validated": true, "ani": 78.0964, "matched_fragments": 113, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Comamonas thiooxydans", "strain": "strain=DSM 17888", "accession": "GCA_000964545.1", "taxid": 363952, "species_taxid": 363952, "relation_to_type": "type", "validated": true, "ani": 78.0577, "matched_fragments": 143, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Limnohabitans radicicola", "strain": "strain=JUR4", "accession": "GCA_014837235.1", "taxid": 2771427, "species_taxid": 2771427, "relation_to_type": "type", "validated": true, "ani": 77.1006, "matched_fragments": 78, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter humi", "strain": "strain=18x22-1", "accession": "GCA_004681975.1", "taxid": 2530451, "species_taxid": 2530451, "relation_to_type": "type", "validated": true, "ani": 76.8329, "matched_fragments": 69, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ottowia beijingensis", "strain": "strain=GCS-AN-3", "accession": "GCA_013423955.1", "taxid": 1207057, "species_taxid": 1207057, "relation_to_type": "type", "validated": true, "ani": 76.7811, "matched_fragments": 71, "total_fragments": 328, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 59.02, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_015478895.1", "gtdb_species": "s__Comamonas sp015478895", "ani": 83.3366, "matched_fragments": 268, "total_fragments": 328, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "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_014836675.1", "gtdb_species": "s__Comamonas sp014836675", "ani": 81.0542, "matched_fragments": 217, "total_fragments": 328, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.72", "min_intra_species_ani": "98.72", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000739875.1", "gtdb_species": "s__Comamonas aquatica", "ani": 80.7619, "matched_fragments": 227, "total_fragments": 328, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.97", "min_intra_species_ani": "96.57", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.87", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_902829245.1", "gtdb_species": "s__Comamonas jiangduensis", "ani": 80.6565, "matched_fragments": 195, "total_fragments": 328, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.84", "min_intra_species_ani": "95.73", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.79", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_008801935.1", "gtdb_species": "s__Comamonas kerstersii", "ani": 80.2383, "matched_fragments": 221, "total_fragments": 328, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.88", "min_intra_species_ani": "98.82", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_900461435.1", "gtdb_species": "s__Comamonas terrigena", "ani": 79.1062, "matched_fragments": 187, "total_fragments": 328, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.97", "min_intra_species_ani": "95.46", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.91", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_019186805.1", "gtdb_species": "s__Comamonas sp019186805", "ani": 78.6926, "matched_fragments": 144, "total_fragments": 328, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "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_008727115.1", "gtdb_species": "s__Comamonas testosteroni_E", "ani": 78.5141, "matched_fragments": 125, "total_fragments": 328, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "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_012844455.2", "gtdb_species": "s__Comamonas suwonensis", "ani": 78.276, "matched_fragments": 148, "total_fragments": 328, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "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_014109725.1", "gtdb_species": "s__Comamonas piscis", "ani": 77.8203, "matched_fragments": 116, "total_fragments": 328, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "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": -0.253, "cell_length": 0.15, "doubling_h": null, "growth_tmp": 29.105, "optimum_tmp": 30.9, "optimum_ph": 7.187, "genome_size": 4304832.798, "gc_content": 64.65, "coding_genes": 3989.889, "rRNA16S_genes": 4.916, "tRNA_genes": 82.75, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.909, "range_salinity": 1.0, "facultative_respiration": 0.071, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.928, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.909, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.09, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Burkholderiaceae", "g__Comamonas", "s__" ], "_genome_taxon": [ "Comamonas", "sp.", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Burkholderiaceae", "g__Comamonas", "s__", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Burkholderiales", "Burkholderiaceae", "Comamonas", "s", "", "" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }