{ "type": "genome", "identifier": "GCF_009846485.1", "organism": "Sodalinema gerasimenkoae IPPAS B-353", "title": "Sodalinema gerasimenkoae IPPAS B-353", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chungnam National University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009846485.1", "bioproject": "PRJNA224116", "biosample": "SAMN02205029", "wgs_master": "ATDS00000000.1", "refseq_category": "reference genome", "taxid": "2709364", "species_taxid": "2862348", "organism_name": "Sodalinema gerasimenkoae IPPAS B-353", "infraspecific_name": "strain=IPPAS B-353", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/01/09", "asm_name": "ASM984648v1", "asm_submitter": "Chungnam National University", "gbrs_paired_asm": "GCA_009846485.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/846/485/GCF_009846485.1_ASM984648v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4866307", "genome_size_ungapped": "4864311", "gc_percent": "52.000000", "replicon_count": "0", "scaffold_count": "1", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009846485.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "4261", "protein_coding_gene_count": "4103", "non_coding_gene_count": "53", "pubmed_id": "26908147" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-01-09", "dateModified": "2020-01-09", "datePublished": "2020-01-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Sodalinema gerasimenkoae IPPAS B-353" ], "sample_taxid": [ "2709364" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Russia: Transbaikal Region" ], "sample_host_location_id": [], "data_size": "1.371 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4866307", "Number of Sequences": "1", "Longest Sequences (bp)": "4866307", "N50 (bp)": "4866307", "Gap Ratio (%)": "0.041017", "GCcontent (%)": "51.8", "Number of CDSs": "4202", "Average Protein Length": "329.9", "Coding Ratio (%)": "85.5", "Number of rRNAs": "6", "Number of tRNAs": "45", "Number of CRISPRs": "9" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Baaleninema simplex", "strain": "strain=PCC 7105", "accession": "GCA_000332355.1", "taxid": 2862350, "species_taxid": 2862350, "relation_to_type": "type", "validated": true, "ani": 77.4701, "matched_fragments": 260, "total_fragments": 1622, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oscillatoria acuminata", "strain": "strain=PCC 6304", "accession": "GCA_000317105.1", "taxid": 118323, "species_taxid": 118323, "relation_to_type": "type", "validated": true, "ani": 76.2291, "matched_fragments": 134, "total_fragments": 1622, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009846485.1", "gtdb_species": "s__Phormidium_A sp009846485", "ani": 100.0, "matched_fragments": 1622, "total_fragments": 1622, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Geitlerinemaceae;g__Phormidium_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_007693465.1", "gtdb_species": "s__Phormidium_A sp007693465", "ani": 92.4528, "matched_fragments": 928, "total_fragments": 1622, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Geitlerinemaceae;g__Phormidium_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": "GCF_012911965.1", "gtdb_species": "s__Phormidium_A sp007126595", "ani": 89.3075, "matched_fragments": 1129, "total_fragments": 1622, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Geitlerinemaceae;g__Phormidium_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.08", "min_intra_species_ani": "98.97", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.76", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_001314905.1", "gtdb_species": "s__Phormidium_A sp001314905", "ani": 84.7014, "matched_fragments": 1116, "total_fragments": 1622, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Geitlerinemaceae;g__Phormidium_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_004299065.1", "gtdb_species": "s__Phormidium_A sp004299065", "ani": 84.627, "matched_fragments": 958, "total_fragments": 1622, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Geitlerinemaceae;g__Phormidium_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.50", "min_intra_species_ani": "99.50", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001637315.1", "gtdb_species": "s__Phormidium_A willei_A", "ani": 84.3507, "matched_fragments": 1010, "total_fragments": 1622, "gtdb_taxonomy": "d__Bacteria;p__Cyanobacteria;c__Cyanobacteriia;o__Cyanobacteriales;f__Geitlerinemaceae;g__Phormidium_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.56", "min_intra_species_ani": "95.56", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.82", "num_clustered_genomes": 2, "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 }, "_genome_taxon": [ "Sodalinema", "gerasimenkoae", "IPPAS", "B-353" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }