{ "type": "genome", "identifier": "GCA_945877115.1", "organism": "Synechococcus sp. UW140", "title": "Synechococcus sp. UW140", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "BIOLOGY CENTRE ASCR, V.V.I., INSTITUTE OF HYDROBIO", "publication": [ {} ], "properties": { "assembly_accession": "GCA_945877115.1", "bioproject": "PRJEB35640", "biosample": "SAMEA110380323", "wgs_master": "CAMCQR000000000.1", "refseq_category": "na", "taxid": "368503", "species_taxid": "368503", "organism_name": "Synechococcus sp. UW140", "infraspecific_name": "", "isolate": "TE-08apr19-66", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/09/10", "asm_name": "TE-08apr19-66", "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/945/877/115/GCA_945877115.1_TE-08apr19-66", "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": "2022-09-10", "dateModified": "2022-09-10", "datePublished": "2022-09-10", "_annotation": { "sample_count": 1, "sample_organism": [ "Synechococcus sp. UW140" ], "sample_taxid": [ "368503" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Switzerland" ], "sample_host_location_id": [], "data_size": "0.767 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2712311", "Number of Sequences": "185", "Longest Sequences (bp)": "74885", "N50 (bp)": "24314", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.5", "Number of CDSs": "2546", "Average Protein Length": "285.5", "Coding Ratio (%)": "80.4", "Number of rRNAs": "0", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Synechococcus lacustris", "strain": "strain=Tous", "accession": "GCA_003011125.1", "taxid": 2116544, "species_taxid": 2116544, "relation_to_type": "suspected-type", "validated": true, "ani": 76.7588, "matched_fragments": 73, "total_fragments": 823, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Parasynechococcus marenigrum", "strain": "strain=WH 8102", "accession": "GCA_000195975.1", "taxid": 2881428, "species_taxid": 2881428, "relation_to_type": "type", "validated": true, "ani": 76.7215, "matched_fragments": 137, "total_fragments": 823, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_014191755.1", "gtdb_species": "s__Cyanobium sp014191755", "ani": 78.9717, "matched_fragments": 333, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "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_903858015.1", "gtdb_species": "s__Cyanobium sp903858015", "ani": 78.7179, "matched_fragments": 348, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "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_019038465.1", "gtdb_species": "s__Cyanobium sp019038465", "ani": 78.6263, "matched_fragments": 348, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "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_000316515.1", "gtdb_species": "s__Cyanobium gracile", "ani": 78.6235, "matched_fragments": 367, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "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_003003925.1", "gtdb_species": "s__Cyanobium minutissimum", "ani": 78.5335, "matched_fragments": 357, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.57", "min_intra_species_ani": "95.57", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016882315.1", "gtdb_species": "s__Cyanobium sp016882315", "ani": 78.5045, "matched_fragments": 348, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "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_903823115.1", "gtdb_species": "s__Cyanobium sp903823115", "ani": 78.5027, "matched_fragments": 342, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.94", "min_intra_species_ani": "99.88", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.96", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_019038415.1", "gtdb_species": "s__Cyanobium sp019038415", "ani": 78.4905, "matched_fragments": 323, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "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_903935205.1", "gtdb_species": "s__Cyanobium sp903935205", "ani": 78.4165, "matched_fragments": 332, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.93", "min_intra_species_ani": "99.91", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002252675.1", "gtdb_species": "s__Cyanobium sp002252675", "ani": 78.4134, "matched_fragments": 353, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.52", "min_intra_species_ani": "95.99", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_014698445.1", "gtdb_species": "s__Cyanobium elabens", "ani": 78.3836, "matched_fragments": 356, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "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_000708525.1", "gtdb_species": "s__Cyanobium sp000708525", "ani": 78.3329, "matched_fragments": 305, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "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_002252705.1", "gtdb_species": "s__Vulcanococcus limneticus", "ani": 78.3153, "matched_fragments": 313, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Vulcanococcus", "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_014224355.1", "gtdb_species": "s__WH-5701 sp014224355", "ani": 77.908, "matched_fragments": 256, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__WH-5701", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_903831165.1", "gtdb_species": "s__Cyanobium sp903831165", "ani": 77.7355, "matched_fragments": 171, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Cyanobium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.25", "min_intra_species_ani": "99.25", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_014191535.1", "gtdb_species": "s__Vulcanococcus sp014191535", "ani": 77.7199, "matched_fragments": 182, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Vulcanococcus", "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_014279755.1", "gtdb_species": "s__Synechococcus_E sp014279755", "ani": 77.0056, "matched_fragments": 101, "total_fragments": 823, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__PCC-6307;f__Cyanobiaceae;g__Synechococcus_E", "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": 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__Cyanobacteriota", "c__Cyanobacteriia", "o__PCC-6307", "f__Cyanobiaceae", "g__Cyanobium", "s__Cyanobium sp945877115" ], "_genome_taxon": [ "Synechococcus", "sp.", "UW140", "d__Bacteria", "p__Cyanobacteriota", "c__Cyanobacteriia", "o__PCC-6307", "f__Cyanobiaceae", "g__Cyanobium", "s__Cyanobium sp945877115", "Bacteria", "Cyanobacteriota", "Cyanobacteriia", "PCC-6307", "Cyanobiaceae", "Cyanobium", "Cyanobium", "sp945877115" ], "_meo": [ { "id": "MEO_0000038", "label": "freshwater" }, { "id": "MEO_0000024", "label": "lake" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }