{ "type": "genome", "identifier": "GCF_023283825.1", "organism": "Shewanella olleyana", "title": "Shewanella olleyana", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Karolinska Institutet", "publication": [ {} ], "properties": { "assembly_accession": "GCF_023283825.1", "bioproject": "PRJNA224116", "biosample": "SAMN24537877", "wgs_master": "JAKILD000000000.1", "refseq_category": "reference genome", "taxid": "135626", "species_taxid": "135626", "organism_name": "Shewanella olleyana", "infraspecific_name": "strain=LMG 21437", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/05/09", "asm_name": "ASM2328382v1", "asm_submitter": "Karolinska Institutet", "gbrs_paired_asm": "GCA_023283825.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/023/283/825/GCF_023283825.1_ASM2328382v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4654310", "genome_size_ungapped": "4654310", "gc_percent": "40.500000", "replicon_count": "0", "scaffold_count": "84", "contig_count": "84", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_023283825.1-RS_2024_05_18", "annotation_date": "2024-05-18", "total_gene_count": "3950", "protein_coding_gene_count": "3812", "non_coding_gene_count": "97", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-05-09", "dateModified": "2022-05-09", "datePublished": "2022-05-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Shewanella olleyana" ], "sample_taxid": [ "135626" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Australia: Tasmania" ], "sample_host_location_id": [], "data_size": "1.323 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)": "4654310", "Number of Sequences": "84", "Longest Sequences (bp)": "367663", "N50 (bp)": "155980", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.4", "Number of CDSs": "3862", "Average Protein Length": "333.3", "Coding Ratio (%)": "83.0", "Number of rRNAs": "3", "Number of tRNAs": "79", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Shewanella olleyana", "strain": "strain=LMG 21437", "accession": "GCA_023283825.1", "taxid": 135626, "species_taxid": 135626, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1512, "total_fragments": 1514, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Shewanella electrodiphila", "strain": "strain=DSM 24955", "accession": "GCA_023283985.1", "taxid": 934143, "species_taxid": 934143, "relation_to_type": "type", "validated": true, "ani": 84.1917, "matched_fragments": 1131, "total_fragments": 1514, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella japonica", "strain": "strain=KCTC 22435", "accession": "GCA_002075795.1", "taxid": 93973, "species_taxid": 93973, "relation_to_type": "type", "validated": true, "ani": 82.4545, "matched_fragments": 933, "total_fragments": 1514, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella donghaensis", "strain": "strain=LT17", "accession": "GCA_007567505.1", "taxid": 238836, "species_taxid": 238836, "relation_to_type": "type", "validated": true, "ani": 80.8827, "matched_fragments": 800, "total_fragments": 1514, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella intestini", "strain": "strain=MCCC 1A01895", "accession": "GCA_018221465.1", "taxid": 2017544, "species_taxid": 2017544, "relation_to_type": "type", "validated": true, "ani": 78.9262, "matched_fragments": 344, "total_fragments": 1514, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella algicola", "strain": "strain=JCM 31091", "accession": "GCA_014648035.1", "taxid": 640633, "species_taxid": 640633, "relation_to_type": "type", "validated": true, "ani": 78.524, "matched_fragments": 385, "total_fragments": 1514, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella saliphila", "strain": "strain=KCTC 62131", "accession": "GCA_023283695.1", "taxid": 2282698, "species_taxid": 2282698, "relation_to_type": "type", "validated": true, "ani": 78.5179, "matched_fragments": 413, "total_fragments": 1514, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella litoralis", "strain": "strain=JCM 32306", "accession": "GCA_009828585.1", "taxid": 2282700, "species_taxid": 2282700, "relation_to_type": "type", "validated": true, "ani": 78.5046, "matched_fragments": 408, "total_fragments": 1514, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella saliphila", "strain": "strain=JCM 32304", "accession": "GCA_014648295.1", "taxid": 2282698, "species_taxid": 2282698, "relation_to_type": "type", "validated": true, "ani": 78.4881, "matched_fragments": 404, "total_fragments": 1514, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella psychromarinicola", "strain": "strain=M2", "accession": "GCA_003855155.1", "taxid": 2487742, "species_taxid": 2487742, "relation_to_type": "type", "validated": true, "ani": 78.2831, "matched_fragments": 338, "total_fragments": 1514, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella inventionis", "strain": "strain=KCTC 42807", "accession": "GCA_023283595.1", "taxid": 1738770, 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_002873615.1", "gtdb_species": "s__Shewanella sp002873615", "ani": 84.4295, "matched_fragments": 1090, "total_fragments": 1514, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "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_002075795.1", "gtdb_species": "s__Shewanella japonica", "ani": 82.4619, "matched_fragments": 931, "total_fragments": 1514, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.37", "min_intra_species_ani": "97.91", "mean_intra_species_af": "0.95", 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"status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.227, "cell_length": 0.265, "doubling_h": 0.077, "growth_tmp": 30.0, "optimum_tmp": 22.248, "optimum_ph": 7.147, "genome_size": 4868941.65, "gc_content": 46.142, "coding_genes": 4161.776, "rRNA16S_genes": 9.437, "tRNA_genes": 107.731, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 0.333, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.812, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.187, "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 }, "_genome_taxon": [ "Shewanella", "olleyana" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }