{ "type": "genome", "identifier": "GCA_023253245.1", "organism": "Polynucleobacter sp.", "title": "Polynucleobacter sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "South China Agricultural University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_023253245.1", "bioproject": "PRJNA730330", "biosample": "SAMN27163964", "wgs_master": "JALRHB000000000.1", "refseq_category": "na", "taxid": "2029855", "species_taxid": "2029855", "organism_name": "Polynucleobacter sp.", "infraspecific_name": "", "isolate": "MLJ.33", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/05/06", "asm_name": "ASM2325324v1", "submitter": "South China Agricultural University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/023/253/245/GCA_023253245.1_ASM2325324v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-05-06", "dateModified": "2022-05-06", "datePublished": "2022-05-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Polynucleobacter sp." ], "sample_taxid": [ "2029855" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Esturies of South China" ], "sample_host_location_id": [], "data_size": "0.470 MB", "sample_ph_range": { "min": 791.0, "max": 791.0 }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 54.17, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1606299", "Number of Sequences": "323", "Longest Sequences (bp)": "40158", "N50 (bp)": "9410", "Gap Ratio (%)": "0.024777", "GCcontent (%)": "45.1", "Number of CDSs": "1433", "Average Protein Length": "280.6", "Coding Ratio (%)": "75.1", "Number of rRNAs": "0", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Polynucleobacter sinensis", "strain": "strain=MWH-HuW1", "accession": "GCA_001595985.1", "taxid": 1743157, "species_taxid": 1743157, "relation_to_type": "type", "validated": true, "ani": 79.3145, "matched_fragments": 199, "total_fragments": 392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter duraquae", "strain": "strain=MWH-MoK4", "accession": "GCA_000973625.1", "taxid": 1835254, "species_taxid": 1835254, "relation_to_type": "type", "validated": true, "ani": 79.2291, "matched_fragments": 204, "total_fragments": 392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter aenigmaticus", "strain": "strain=MWH-K35W1", "accession": "GCA_002206635.1", "taxid": 1743164, "species_taxid": 1743164, "relation_to_type": "type", "validated": true, "ani": 79.201, "matched_fragments": 206, "total_fragments": 392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter corsicus", "strain": "strain=AP-Melu-1000-A1", "accession": "GCA_018688255.1", "taxid": 2081042, "species_taxid": 2081042, "relation_to_type": "type", "validated": true, "ani": 79.1392, "matched_fragments": 187, "total_fragments": 392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter bastaniensis", "strain": "strain=AP-Basta-1000A-D1", "accession": "GCA_018882205.1", "taxid": 2081039, "species_taxid": 2081039, "relation_to_type": "type", "validated": true, "ani": 79.1278, "matched_fragments": 188, "total_fragments": 392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter arcticus", "strain": "strain=UK-Long2-W17", "accession": "GCA_013307205.1", "taxid": 1743165, "species_taxid": 1743165, "relation_to_type": "type", "validated": true, "ani": 79.1032, "matched_fragments": 185, "total_fragments": 392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter hallstattensis", "strain": "strain=MWH-Hall10", "accession": "GCA_018881835.1", "taxid": 1855586, "species_taxid": 1855586, "relation_to_type": "type", "validated": true, "ani": 79.0947, "matched_fragments": 223, "total_fragments": 392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter tropicus", "strain": "strain=MWH-UH21B", "accession": "GCA_013307225.1", "taxid": 1743174, "species_taxid": 1743174, "relation_to_type": "type", "validated": true, "ani": 78.5478, "matched_fragments": 140, "total_fragments": 392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter antarcticus", "strain": "strain=LimPoW16", "accession": "GCA_013307245.1", "taxid": 1743162, "species_taxid": 1743162, "relation_to_type": "type", "validated": true, "ani": 78.4827, "matched_fragments": 154, "total_fragments": 392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter campilacus", "strain": "strain=MWH-Feld-100", "accession": "GCA_002206625.1", "taxid": 1743163, "species_taxid": 1743163, "relation_to_type": "type", "validated": true, "ani": 78.453, "matched_fragments": 148, "total_fragments": 392, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter paludilacus", "strain": "strain=MWH-Mekk-C3", "accession": "GCA_018687595.1", "taxid": 1855895, "species_taxid": 1855895, "relation_to_type": "type", "validated": true, "ani": 77.9105, "matched_fragments": 116, "total_fragments": 392, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 54.17, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_018687975.1", "gtdb_species": "s__Polynucleobacter sp018687975", "ani": 83.1288, "matched_fragments": 332, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_001830325.1", "gtdb_species": "s__Polynucleobacter sp001830325", "ani": 79.8512, "matched_fragments": 230, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018882295.1", "gtdb_species": "s__Polynucleobacter sp018882295", "ani": 79.7511, "matched_fragments": 208, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018688235.1", "gtdb_species": "s__Polynucleobacter sp018688235", "ani": 79.5143, "matched_fragments": 195, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018882405.1", "gtdb_species": "s__Polynucleobacter sp018882405", "ani": 79.4994, "matched_fragments": 215, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_900095165.1", "gtdb_species": "s__Polynucleobacter necessarius_J", "ani": 79.4949, "matched_fragments": 181, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_900095175.1", "gtdb_species": "s__Polynucleobacter necessarius_I", "ani": 79.4715, "matched_fragments": 232, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018882325.1", "gtdb_species": "s__Polynucleobacter sp018882325", "ani": 79.4426, "matched_fragments": 227, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018881505.1", "gtdb_species": "s__Polynucleobacter sp018881505", "ani": 79.3388, "matched_fragments": 184, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_001595985.1", "gtdb_species": "s__Polynucleobacter sinensis", "ani": 79.3163, "matched_fragments": 198, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_000973625.1", "gtdb_species": "s__Polynucleobacter duraquae", "ani": 79.2237, "matched_fragments": 203, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018687675.1", "gtdb_species": "s__Polynucleobacter sp018687675", "ani": 79.168, "matched_fragments": 211, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018688255.1", "gtdb_species": "s__Polynucleobacter sp018688255", "ani": 79.1392, "matched_fragments": 187, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018882205.1", "gtdb_species": "s__Polynucleobacter sp018882205", "ani": 79.1287, "matched_fragments": 187, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018881835.1", "gtdb_species": "s__Polynucleobacter sp018881835", "ani": 79.1033, "matched_fragments": 222, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018688155.1", "gtdb_species": "s__Polynucleobacter sp018688155", "ani": 78.9465, "matched_fragments": 210, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018882095.1", "gtdb_species": "s__Polynucleobacter sp018882095", "ani": 78.8653, "matched_fragments": 179, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018881575.1", "gtdb_species": "s__Polynucleobacter sp018881575", "ani": 78.5381, "matched_fragments": 164, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018881605.1", "gtdb_species": "s__Polynucleobacter sp018881605", "ani": 78.4395, "matched_fragments": 156, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_903930665.1", "gtdb_species": "s__Polynucleobacter sp903930665", "ani": 77.7665, "matched_fragments": 96, "total_fragments": 392, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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": -0.45, "cell_length": -0.029, "doubling_h": null, "growth_tmp": 25.5, "optimum_tmp": 20.0, "optimum_ph": 6.2, "genome_size": 1985362.708, "gc_content": 46.363, "coding_genes": 1918.652, "rRNA16S_genes": 1.0, "tRNA_genes": 37.981, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.25, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.75, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.8, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.2, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Burkholderiaceae", "g__Polynucleobacter", "s__Polynucleobacter sp023253245" ], "_genome_taxon": [ "Polynucleobacter", "sp.", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Burkholderiales", "f__Burkholderiaceae", "g__Polynucleobacter", "s__Polynucleobacter sp023253245", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Burkholderiales", "Burkholderiaceae", "Polynucleobacter", "Polynucleobacter", "sp023253245" ], "_meo": [ { "id": "MEO_0000087", "label": "estuary" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }