{ "type": "genome", "identifier": "GCA_947459295.1", "organism": "Chitinophagaceae bacterium", "title": "Chitinophagaceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "BIOLOGY CENTRE ASCR, V.V.I., INSTITUTE OF HYDROBIO", "publication": [ {} ], "properties": { "assembly_accession": "GCA_947459295.1", "bioproject": "PRJEB35770", "biosample": "SAMEA112173713", "wgs_master": "CANHCY000000000.1", "refseq_category": "na", "taxid": "1869212", "species_taxid": "1869212", "organism_name": "Chitinophagaceae bacterium", "infraspecific_name": "", "isolate": "RE-18aug17-282", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/12/02", "asm_name": "RE-18aug17-282", "submitter": "BIOLOGY CENTRE ASCR, V.V.I., INSTITUTE OF HYDROBIO", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/947/459/295/GCA_947459295.1_RE-18aug17-282", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-12-02", "dateModified": "2022-12-02", "datePublished": "2022-12-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Chitinophagaceae bacterium" ], "sample_taxid": [ "1869212" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Czech Republic" ], "sample_host_location_id": [], "data_size": "0.653 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 62.5, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2298027", "Number of Sequences": "94", "Longest Sequences (bp)": "133946", "N50 (bp)": "42795", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "38.0", "Number of CDSs": "1867", "Average Protein Length": "367.3", "Coding Ratio (%)": "89.5", "Number of rRNAs": "0", "Number of tRNAs": "21", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sediminibacterium goheungense", "strain": "strain=DSM 28323", "accession": "GCA_004361915.1", "taxid": 1086393, "species_taxid": 1086393, "relation_to_type": "type", "validated": true, "ani": 76.2973, "matched_fragments": 93, "total_fragments": 721, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sediminibacterium salmoneum", "strain": "strain=NBRC 103935", "accession": "GCA_000511175.1", "taxid": 426421, "species_taxid": 426421, "relation_to_type": "type", "validated": true, "ani": 76.1435, "matched_fragments": 77, "total_fragments": 721, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 62.5, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_903958045.1", "gtdb_species": "s__Sediminibacterium sp903958045", "ani": 90.57, "matched_fragments": 541, "total_fragments": 721, "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_017987615.1", "gtdb_species": "s__Sediminibacterium sp017987615", "ani": 90.2435, "matched_fragments": 326, "total_fragments": 721, "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_018971025.1", "gtdb_species": "s__Sediminibacterium sp018971025", "ani": 86.4324, "matched_fragments": 464, "total_fragments": 721, "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_002299885.1", "gtdb_species": "s__Sediminibacterium sp002299885", "ani": 77.0367, "matched_fragments": 83, "total_fragments": 721, "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_017983845.1", "gtdb_species": "s__Sediminibacterium sp017983845", "ani": 76.9087, "matched_fragments": 81, "total_fragments": 721, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.69", "min_intra_species_ani": "99.69", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_017856545.1", "gtdb_species": "s__Sediminibacterium sp017856545", "ani": 76.8816, "matched_fragments": 95, "total_fragments": 721, "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_903831935.1", "gtdb_species": "s__Sediminibacterium sp903831935", "ani": 76.7025, "matched_fragments": 151, "total_fragments": 721, "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": "-" }, { "accession": "GCA_903825095.1", "gtdb_species": "s__Sediminibacterium sp903825095", "ani": 76.6219, "matched_fragments": 67, "total_fragments": 721, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Chitinophagales;f__Chitinophagaceae;g__Sediminibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.41", "min_intra_species_ani": "98.41", "mean_intra_species_af": "0.71", "min_intra_species_af": "0.71", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_009924165.1", "gtdb_species": "s__Sediminibacterium sp009924165", "ani": 76.3115, "matched_fragments": 72, "total_fragments": 721, "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": "GCF_004361915.1", "gtdb_species": "s__Sediminibacterium goheungense", "ani": 76.2973, "matched_fragments": 93, "total_fragments": 721, "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_012270485.1", "gtdb_species": "s__Sediminibacterium sp012270485", "ani": 76.2047, "matched_fragments": 104, "total_fragments": 721, "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": 76.1061, "matched_fragments": 102, "total_fragments": 721, "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_002256435.1", "gtdb_species": "s__Sediminibacterium sp002256435", "ani": 76.0209, "matched_fragments": 101, "total_fragments": 721, "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_903847655.1", "gtdb_species": "s__Sediminibacterium sp903847655", "ani": 76.0197, "matched_fragments": 66, "total_fragments": 721, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.322, "cell_length": 0.364, "doubling_h": null, "growth_tmp": 30.538, "optimum_tmp": 29.829, "optimum_ph": 6.773, "genome_size": 5998721.602, "gc_content": 44.915, "coding_genes": 5429.047, "rRNA16S_genes": 3.5, "tRNA_genes": 54.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.225, "range_salinity": null, "facultative_respiration": 0.034, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.965, "mesophilic_range_tmp": 0.75, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.25, "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__Bacteroidota", "c__Bacteroidia", "o__Chitinophagales", "f__Chitinophagaceae", "g__Sediminibacterium", "s__Sediminibacterium sp947459295" ], "_genome_taxon": [ "Chitinophagaceae", "bacterium", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Chitinophagales", "f__Chitinophagaceae", "g__Sediminibacterium", "s__Sediminibacterium sp947459295", "Bacteria", "Bacteroidota", "Bacteroidia", "Chitinophagales", "Chitinophagaceae", "Sediminibacterium", "Sediminibacterium", "sp947459295" ], "_meo": [ { "id": "MEO_0000038", "label": "freshwater" }, { "id": "MEO_0000024", "label": "lake" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }