{ "type": "genome", "identifier": "GCF_023283695.1", "organism": "Shewanella saliphila", "title": "Shewanella saliphila", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Karolinska Institutet", "publication": [ {} ], "properties": { "assembly_accession": "GCF_023283695.1", "bioproject": "PRJNA224116", "biosample": "SAMN24537887", "wgs_master": "JAKILM000000000.1", "refseq_category": "na", "taxid": "2282698", "species_taxid": "2282698", "organism_name": "Shewanella saliphila", "infraspecific_name": "strain=KCTC 62131", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/05/09", "asm_name": "ASM2328369v1", "asm_submitter": "Karolinska Institutet", "gbrs_paired_asm": "GCA_023283695.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/023/283/695/GCF_023283695.1_ASM2328369v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4625567", "genome_size_ungapped": "4625567", "gc_percent": "42.500000", "replicon_count": "0", "scaffold_count": "121", "contig_count": "121", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_023283695.1-RS_2024_05_18", "annotation_date": "2024-05-18", "total_gene_count": "4098", "protein_coding_gene_count": "3938", "non_coding_gene_count": "108", "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 saliphila" ], "sample_taxid": [ "2282698" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Ulleung island" ], "sample_host_location_id": [], "data_size": "1.317 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)": "4625567", "Number of Sequences": "121", "Longest Sequences (bp)": "429776", "N50 (bp)": "97054", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "42.5", "Number of CDSs": "3971", "Average Protein Length": "331.3", "Coding Ratio (%)": "85.3", "Number of rRNAs": "2", "Number of tRNAs": "88", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Shewanella saliphila", "strain": "strain=KCTC 62131", "accession": "GCA_023283695.1", "taxid": 2282698, "species_taxid": 2282698, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1483, "total_fragments": 1486, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Shewanella saliphila", "strain": "strain=JCM 32304", "accession": "GCA_014648295.1", "taxid": 2282698, "species_taxid": 2282698, "relation_to_type": "type", "validated": true, "ani": 99.9884, "matched_fragments": 1473, "total_fragments": 1486, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Shewanella algicola", "strain": "strain=JCM 31091", "accession": "GCA_014648035.1", "taxid": 640633, "species_taxid": 640633, "relation_to_type": "type", "validated": true, "ani": 95.0045, "matched_fragments": 1311, "total_fragments": 1486, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Shewanella litoralis", "strain": "strain=JCM 32306", "accession": "GCA_014648335.1", "taxid": 2282700, "species_taxid": 2282700, "relation_to_type": "type", "validated": true, "ani": 88.9278, "matched_fragments": 1209, "total_fragments": 1486, "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": 88.8958, "matched_fragments": 1212, "total_fragments": 1486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella inventionis", "strain": "strain=KCTC 42807", "accession": "GCA_023283595.1", "taxid": 1738770, "species_taxid": 1738770, "relation_to_type": "type", "validated": true, "ani": 84.9835, "matched_fragments": 1116, "total_fragments": 1486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella ulleungensis", "strain": "strain=KCTC 62130", "accession": "GCA_023283965.1", "taxid": 2282699, "species_taxid": 2282699, "relation_to_type": "type", "validated": true, "ani": 84.9133, "matched_fragments": 1142, "total_fragments": 1486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella ulleungensis", 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"GCA_003026365.1", "taxid": 661, "species_taxid": 661, "relation_to_type": "type", "validated": true, "ani": 76.0727, "matched_fragments": 55, "total_fragments": 1486, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Photobacterium angustum", "strain": "strain=ATCC 25915", "accession": "GCA_000950005.1", "taxid": 661, "species_taxid": 661, "relation_to_type": "type", "validated": true, "ani": 76.0428, "matched_fragments": 55, "total_fragments": 1486, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014648295.1", "gtdb_species": "s__Shewanella saliphila", "ani": 99.9884, "matched_fragments": 1473, "total_fragments": 1486, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.1181, "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": "GCF_014648035.1", "gtdb_species": "s__Shewanella algicola", "ani": 94.9932, "matched_fragments": 1312, "total_fragments": 1486, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.1181, "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_009828585.1", "gtdb_species": "s__Shewanella litoralis", "ani": 88.881, "matched_fragments": 1215, "total_fragments": 1486, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014641855.1", "gtdb_species": "s__Shewanella inventionis", "ani": 84.9348, "matched_fragments": 1127, "total_fragments": 1486, "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_014648315.1", "gtdb_species": "s__Shewanella ulleungensis", "ani": 84.8207, "matched_fragments": 1152, "total_fragments": 1486, "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": 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