{ "type": "genome", "identifier": "GCA_937944705.1", "organism": "uncultured Comamonas sp.", "title": "uncultured Comamonas sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "marine college, shandong university", "publication": [ {} ], "properties": { "assembly_accession": "GCA_937944705.1", "bioproject": "PRJEB50838", "biosample": "SAMEA14072981", "wgs_master": "CALFBC000000000.1", "refseq_category": "na", "taxid": "114710", "species_taxid": "114710", "organism_name": "uncultured Comamonas sp.", "infraspecific_name": "", "isolate": "H1_Bin_Bin_16_1", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/01/28", "asm_name": "H1_Bin_Bin_16_1", "submitter": "marine college, shandong university", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/937/944/705/GCA_937944705.1_H1_Bin_Bin_16_1", "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": "2023-01-28", "dateModified": "2023-01-28", "datePublished": "2023-01-28", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Comamonas sp." ], "sample_taxid": [ "114710" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.613 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "5876695", "Number of Sequences": "250", "Longest Sequences (bp)": "209311", "N50 (bp)": "34369", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "67.0", "Number of CDSs": "5094", "Average Protein Length": "325.9", "Coding Ratio (%)": "84.8", "Number of rRNAs": "1", "Number of tRNAs": "53", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Delftia acidovorans", "strain": "strain=FDAARGOS_997", "accession": "GCA_016127415.1", "taxid": 80866, "species_taxid": 80866, "relation_to_type": "type", "validated": true, "ani": 95.5487, "matched_fragments": 1630, "total_fragments": 1837, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Delftia acidovorans", "strain": "strain=NBRC 14950", "accession": "GCA_001598795.1", "taxid": 80866, "species_taxid": 80866, "relation_to_type": "type", "validated": true, "ani": 95.5306, "matched_fragments": 1621, "total_fragments": 1837, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Comamonas terrae", "strain": "strain=NBRC 106524", "accession": "GCA_001544075.1", "taxid": 673548, "species_taxid": 673548, "relation_to_type": "type", "validated": true, "ani": 84.5878, "matched_fragments": 1032, "total_fragments": 1837, "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": 84.5011, "matched_fragments": 918, "total_fragments": 1837, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Comamonas testosteroni", "strain": "strain=ATCC 11996", "accession": "GCA_000241525.2", "taxid": 285, "species_taxid": 285, "relation_to_type": "suspected-type", "validated": true, "ani": 82.2168, "matched_fragments": 951, "total_fragments": 1837, "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": 82.1165, "matched_fragments": 949, "total_fragments": 1837, "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": 82.0738, "matched_fragments": 759, "total_fragments": 1837, "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": 81.8253, "matched_fragments": 847, "total_fragments": 1837, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidovorax soli", "strain": "strain=DSM 25157", "accession": "GCA_900107605.1", "taxid": 592050, "species_taxid": 592050, "relation_to_type": "type", "validated": true, "ani": 81.3707, "matched_fragments": 724, "total_fragments": 1837, "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": 81.0068, "matched_fragments": 807, "total_fragments": 1837, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Diaphorobacter ruginosibacter", "strain": "strain=DSM 27467", "accession": "GCA_014395975.1", "taxid": 1715720, "species_taxid": 1715720, "relation_to_type": "type", "validated": true, "ani": 80.7029, "matched_fragments": 775, "total_fragments": 1837, "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": 80.4406, "matched_fragments": 760, "total_fragments": 1837, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xylophilus ampelinus", "strain": "strain=CFBP 1192", "accession": "GCA_024832295.1", "taxid": 54067, "species_taxid": 54067, "relation_to_type": "type", "validated": true, "ani": 79.8858, "matched_fragments": 546, "total_fragments": 1837, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga crocea", "strain": "strain=BA0156", "accession": "GCA_011388215.1", "taxid": 2716225, "species_taxid": 2716225, "relation_to_type": "type", "validated": true, "ani": 79.88, "matched_fragments": 653, "total_fragments": 1837, "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": 79.734, "matched_fragments": 624, "total_fragments": 1837, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001571325.1", "gtdb_species": "s__Comamonas tsuruhatensis", "ani": 98.5316, "matched_fragments": 1687, "total_fragments": 1837, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "ani_circumscription_radius": 95.4801, "mean_intra_species_ani": "98.55", "min_intra_species_ani": "98.21", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.80", "num_clustered_genomes": 27, "status": "inconclusive" }, { "accession": "GCF_001598795.1", "gtdb_species": "s__Comamonas acidovorans", "ani": 95.5233, "matched_fragments": 1622, "total_fragments": 1837, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "ani_circumscription_radius": 95.4801, "mean_intra_species_ani": "97.72", "min_intra_species_ani": "96.19", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.80", "num_clustered_genomes": 41, "status": "inconclusive" }, { "accession": "GCF_001544075.1", "gtdb_species": "s__Comamonas terrae", "ani": 84.6045, "matched_fragments": 1031, "total_fragments": 1837, "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_014637085.1", "gtdb_species": "s__Comamonas phosphati", "ani": 84.4971, "matched_fragments": 919, "total_fragments": 1837, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", 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"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_000761245.1", "gtdb_species": "s__Comamonas testosteroni_C", "ani": 82.4066, "matched_fragments": 926, "total_fragments": 1837, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.84", "min_intra_species_ani": "98.53", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000964545.1", "gtdb_species": "s__Comamonas thiooxydans", "ani": 82.1219, "matched_fragments": 949, "total_fragments": 1837, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Comamonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": 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"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__Comamonas tsuruhatensis" ], "_genome_taxon": [ "uncultured", "Comamonas", "sp.", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Burkholderiaceae", "g__Comamonas", "s__Comamonas tsuruhatensis", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Burkholderiales", "Burkholderiaceae", "Comamonas", "Comamonas", "tsuruhatensis" ], "_meo": [ { "id": "MEO_0000041", "label": "marine water" }, { "id": "MEO_0000419", "label": "plant body associated" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }