{ "type": "genome", "identifier": "GCA_903914705.1", "organism": "uncultured Bacteroidetes bacterium", "title": "uncultured Bacteroidetes bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "BILS", "publication": [ {} ], "properties": { "assembly_accession": "GCA_903914705.1", "bioproject": "PRJEB38681", "biosample": "SAMEA6944928", "wgs_master": "CAIWQE000000000.1", "refseq_category": "na", "taxid": "152509", "species_taxid": "152509", "organism_name": "uncultured Bacteroidetes bacterium", "infraspecific_name": "", "isolate": "Ja2-D4_bin-0361", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/18", "asm_name": "freshwater MAG --- Ja2-D4_bin-0361", "submitter": "BILS", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/903/914/705/GCA_903914705.1_freshwater_MAG_---_Ja2-D4_bin-0361", "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": "2020-07-18", "dateModified": "2020-07-18", "datePublished": "2020-07-18", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Bacteroidetes bacterium" ], "sample_taxid": [ "152509" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Sweden" ], "sample_host_location_id": [], "data_size": "0.821 MB", "sample_ph_range": { "min": 723.0, "max": 723.0 }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 86.11, "contamination": 0.38, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2910144", "Number of Sequences": "505", "Longest Sequences (bp)": "34124", "N50 (bp)": "7383", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "35.0", "Number of CDSs": "2001", "Average Protein Length": "337.7", "Coding Ratio (%)": "69.7", "Number of rRNAs": "0", "Number of tRNAs": "26", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sediminibacterium salmoneum", "strain": "strain=NBRC 103935", "accession": "GCA_000511175.1", "taxid": 426421, "species_taxid": 426421, "relation_to_type": "type", "validated": true, "ani": 76.6556, "matched_fragments": 93, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sediminibacterium goheungense", "strain": "strain=DSM 28323", "accession": "GCA_004361915.1", "taxid": 1086393, "species_taxid": 1086393, "relation_to_type": "type", "validated": true, "ani": 76.4797, "matched_fragments": 86, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrotalea sandarakina", "strain": "strain=DSM 23241", "accession": "GCA_003254115.1", "taxid": 1004304, "species_taxid": 1004304, "relation_to_type": "type", "validated": true, "ani": 76.0197, "matched_fragments": 84, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Limnovirga soli", "strain": "strain=KCS-6", "accession": "GCA_013106755.1", "taxid": 2656915, "species_taxid": 2656915, "relation_to_type": "type", "validated": true, "ani": 75.7356, "matched_fragments": 74, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Panacibacter ginsenosidivorans", "strain": "strain=Gsoil1550", "accession": "GCA_007971225.1", "taxid": 1813871, "species_taxid": 1813871, "relation_to_type": "type", "validated": true, "ani": 75.6266, "matched_fragments": 59, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ferruginibacter albus", "strain": "strain=KIS38-8", "accession": "GCA_020042285.1", "taxid": 2875540, "species_taxid": 2875540, "relation_to_type": "type", "validated": true, "ani": 75.4799, "matched_fragments": 50, "total_fragments": 700, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 86.11, "contamination": 0.38, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_903831935.1", "gtdb_species": "s__Sediminibacterium sp903831935", "ani": 99.3304, "matched_fragments": 665, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.28", "min_intra_species_ani": "98.68", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCA_903825065.1", "gtdb_species": "s__Sediminibacterium sp903825065", "ani": 78.2776, "matched_fragments": 158, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.09", "min_intra_species_ani": "98.06", "mean_intra_species_af": "0.72", "min_intra_species_af": "0.65", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_903927185.1", "gtdb_species": "s__Sediminibacterium sp903927185", "ani": 78.0968, "matched_fragments": 211, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.80", "min_intra_species_ani": "99.71", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_002256765.1", "gtdb_species": "s__Sediminibacterium sp002256765", "ani": 78.0946, "matched_fragments": 204, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.72", "min_intra_species_ani": "99.72", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002256435.1", "gtdb_species": "s__Sediminibacterium sp002256435", "ani": 77.8899, "matched_fragments": 253, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "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_903933995.1", "gtdb_species": "s__Sediminibacterium sp903933995", "ani": 77.7407, "matched_fragments": 177, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "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_903821465.1", "gtdb_species": "s__Sediminibacterium sp903821465", "ani": 77.7121, "matched_fragments": 193, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "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_903874055.1", "gtdb_species": "s__Sediminibacterium sp903874055", "ani": 77.4647, "matched_fragments": 85, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.58", "min_intra_species_ani": "99.40", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.85", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCA_903924075.1", "gtdb_species": "s__Sediminibacterium sp903924075", "ani": 77.417, "matched_fragments": 189, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "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_017856545.1", "gtdb_species": "s__Sediminibacterium sp017856545", "ani": 77.0159, "matched_fragments": 93, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "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_004294465.1", "gtdb_species": "s__Sediminibacterium sp004294465", "ani": 76.9637, "matched_fragments": 88, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "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_903958045.1", "gtdb_species": "s__Sediminibacterium sp903958045", "ani": 76.9524, "matched_fragments": 143, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.78", "min_intra_species_ani": "99.78", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002281575.1", "gtdb_species": "s__Sediminibacterium sp002281575", "ani": 76.9425, "matched_fragments": 139, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "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_013297995.1", "gtdb_species": "s__Sediminibacterium sp013297995", "ani": 76.7444, "matched_fragments": 107, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "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_903881425.1", "gtdb_species": "s__CAILAF01 sp903881425", "ani": 76.7411, "matched_fragments": 107, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__CAILAF01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.80", "min_intra_species_ani": "99.80", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018267725.1", "gtdb_species": "s__CW01 sp018267725", "ani": 76.4281, "matched_fragments": 115, "total_fragments": 700, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__CW01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.77", "min_intra_species_ani": "97.12", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "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__Bacteroidota", "c__Bacteroidia", "o__Chitinophagales", "f__Chitinophagaceae", "g__Sediminibacterium", "s__Sediminibacterium sp903831935" ], "_genome_taxon": [ "uncultured", "Bacteroidetes", "bacterium", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Chitinophagales", "f__Chitinophagaceae", "g__Sediminibacterium", "s__Sediminibacterium sp903831935", "Bacteria", "Bacteroidota", "Bacteroidia", "Chitinophagales", "Chitinophagaceae", "Sediminibacterium", "Sediminibacterium", "sp903831935" ], "_meo": [ { "id": "MEO_0000038", "label": "freshwater" }, { "id": "MEO_0000024", "label": "lake" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }