{ "type": "genome", "identifier": "GCA_902624495.1", "organism": "uncultured Pelagibacteraceae bacterium", "title": "uncultured Pelagibacteraceae bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "WOODS HOLE OCEANOGRAPHIC INSTITUTION", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902624495.1", "bioproject": "PRJEB33281", "biosample": "SAMEA6067798", "wgs_master": "CACNYH000000000.1", "refseq_category": "na", "taxid": "1667051", "species_taxid": "1667051", "organism_name": "uncultured Pelagibacteraceae bacterium", "infraspecific_name": "", "isolate": "AH-287-I04", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/11/07", "asm_name": "AH-287-I04", "submitter": "WOODS HOLE OCEANOGRAPHIC INSTITUTION", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/624/495/GCA_902624495.1_AH-287-I04", "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": "2019-11-07", "dateModified": "2019-11-07", "datePublished": "2019-11-07", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Pelagibacteraceae bacterium" ], "sample_taxid": [ "1667051" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.227 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)": "815355", "Number of Sequences": "48", "Longest Sequences (bp)": "138136", "N50 (bp)": "31124", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "30.4", "Number of CDSs": "813", "Average Protein Length": "299.1", "Coding Ratio (%)": "89.5", "Number of rRNAs": "2", "Number of tRNAs": "22", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [], "cc_result": { "completeness": 83.33, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_902624495.1", "gtdb_species": "s__Pelagibacter_A sp902624495", "ani": 99.9998, "matched_fragments": 245, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "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": "conclusive" }, { "accession": "GCA_902549495.1", "gtdb_species": "s__Pelagibacter_A sp902549495", "ani": 91.1347, "matched_fragments": 135, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "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_902587515.1", "gtdb_species": "s__Pelagibacter_A sp902587515", "ani": 89.3186, "matched_fragments": 200, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "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_902618555.1", "gtdb_species": "s__Pelagibacter_A sp902618555", "ani": 88.2251, "matched_fragments": 150, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "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_902598315.1", "gtdb_species": "s__Pelagibacter_A sp902598315", "ani": 84.7865, "matched_fragments": 153, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "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_902590505.1", "gtdb_species": "s__Pelagibacter_A sp902590505", "ani": 84.7465, "matched_fragments": 165, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.37", "min_intra_species_ani": "97.20", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_902613545.1", "gtdb_species": "s__Pelagibacter_A sp902613545", "ani": 84.6552, "matched_fragments": 174, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.67", "min_intra_species_ani": "95.67", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.79", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902535255.1", "gtdb_species": "s__Pelagibacter_A sp902535255", "ani": 83.8547, "matched_fragments": 164, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "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_902536385.1", "gtdb_species": "s__Pelagibacter_A sp902536385", "ani": 83.2225, "matched_fragments": 160, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "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_902545945.1", "gtdb_species": "s__Pelagibacter_A sp902545945", "ani": 80.9725, "matched_fragments": 108, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "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_014653835.1", "gtdb_species": "s__Pelagibacter_A sp014653835", "ani": 79.0464, "matched_fragments": 120, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "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_002704145.1", "gtdb_species": "s__Pelagibacter_A sp002704145", "ani": 78.3519, "matched_fragments": 100, "total_fragments": 246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Pelagibacterales;f__Pelagibacteraceae;g__Pelagibacter_A", "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": -0.921, "cell_length": null, "doubling_h": 1.539, "growth_tmp": 17.5, "optimum_tmp": 37.0, "optimum_ph": 7.8, "genome_size": 1339460.152, "gc_content": 30.033, "coding_genes": 1406.332, "rRNA16S_genes": 1.0, "tRNA_genes": 33.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Pelagibacterales", "f__Pelagibacteraceae", "g__Pelagibacter_A", "s__Pelagibacter_A sp902624495" ], "_genome_taxon": [ "uncultured", "Pelagibacteraceae", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Pelagibacterales", "f__Pelagibacteraceae", "g__Pelagibacter_A", "s__Pelagibacter_A sp902624495", "Bacteria", "Pseudomonadota", "Alphaproteobacteria", "Pelagibacterales", "Pelagibacteraceae", "Pelagibacter", "A", "Pelagibacter", "A", "sp902624495" ], "_meo": [ { "id": "MEO_0000041", "label": "marine water" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }