{ "type": "genome", "identifier": "GCF_019655175.1", "organism": "Shewanella algidipiscicola", "title": "Shewanella algidipiscicola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Toho University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_019655175.1", "bioproject": "PRJNA224116", "biosample": "SAMD00284631", "wgs_master": "BPFB00000000.1", "refseq_category": "na", "taxid": "614070", "species_taxid": "614070", "organism_name": "Shewanella algidipiscicola", "infraspecific_name": "strain=LMG 23746", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/05/14", "asm_name": "ASM1965517v1", "asm_submitter": "Toho University", "gbrs_paired_asm": "GCA_019655175.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/019/655/175/GCF_019655175.1_ASM1965517v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4224244", "genome_size_ungapped": "4224244", "gc_percent": "46.500000", "replicon_count": "0", "scaffold_count": "191", "contig_count": "191", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_019655175.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "3834", "protein_coding_gene_count": "3642", "non_coding_gene_count": "128", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-05-14", "dateModified": "2021-05-14", "datePublished": "2021-05-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Shewanella algidipiscicola" ], "sample_taxid": [ "614070" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.210 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)": "4224244", "Number of Sequences": "191", "Longest Sequences (bp)": "177554", "N50 (bp)": "76863", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "46.6", "Number of CDSs": "3637", "Average Protein Length": "321.4", "Coding Ratio (%)": "83.0", "Number of rRNAs": "9", "Number of tRNAs": "96", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Shewanella algidipiscicola", "strain": "strain=LMG 23746", "accession": "GCA_019655175.1", "taxid": 614070, "species_taxid": 614070, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1334, "total_fragments": 1340, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Shewanella algidipiscicola", "strain": "strain=LMG 23746", "accession": "GCA_003605125.1", "taxid": 614070, "species_taxid": 614070, "relation_to_type": "type", "validated": true, "ani": 99.9915, "matched_fragments": 1327, "total_fragments": 1340, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Shewanella colwelliana", "strain": "strain=ATCC 39565", "accession": "GCA_000518705.1", "taxid": 23, "species_taxid": 23, "relation_to_type": "type", "validated": true, "ani": 80.3206, "matched_fragments": 578, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella marisflavi", "strain": "strain=JCM 12192", "accession": "GCA_023283925.1", "taxid": 260364, "species_taxid": 260364, "relation_to_type": "type", "validated": true, "ani": 79.7976, "matched_fragments": 509, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella aquimarina", "strain": "strain=JCM 12193", "accession": "GCA_023349185.1", "taxid": 260365, "species_taxid": 260365, "relation_to_type": "type", "validated": true, "ani": 79.7014, "matched_fragments": 455, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella insulae", "strain": "strain=JBTF-M18", "accession": "GCA_009831655.1", "taxid": 2681496, "species_taxid": 2681496, "relation_to_type": "type", "validated": true, "ani": 79.54, "matched_fragments": 464, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella loihica", "strain": "strain=PV-4", "accession": "GCA_000016065.1", "taxid": 359303, "species_taxid": 359303, "relation_to_type": "type", "validated": true, "ani": 79.3368, "matched_fragments": 486, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella fidelis", "strain": "strain=ATCC BAA-318", "accession": "GCA_000518605.1", "taxid": 173509, "species_taxid": 173509, "relation_to_type": "type", "validated": true, "ani": 78.7635, "matched_fragments": 286, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella atlantica", "strain": "strain=HAW-EB5", "accession": "GCA_003966265.1", "taxid": 271099, "species_taxid": 271099, "relation_to_type": "type", "validated": true, "ani": 78.6787, "matched_fragments": 321, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella kaireitica", "strain": "strain=DSM 17170", "accession": "GCA_023284045.1", "taxid": 212021, "species_taxid": 212021, "relation_to_type": "type", "validated": true, "ani": 78.5485, "matched_fragments": 295, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella hanedai", "strain": "strain=JCM 20706", "accession": "GCA_007197645.1", "taxid": 25, "species_taxid": 25, "relation_to_type": "type", "validated": true, "ani": 78.4421, "matched_fragments": 304, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella schlegeliana", "strain": "strain=LMG 21406", "accession": "GCA_023283605.1", "taxid": 190308, "species_taxid": 190308, "relation_to_type": "type", "validated": true, "ani": 78.4409, "matched_fragments": 330, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella abyssi", "strain": "strain=DSM 17171", "accession": "GCA_023284025.1", "taxid": 311789, "species_taxid": 311789, "relation_to_type": "type", "validated": true, "ani": 78.3084, "matched_fragments": 276, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella basaltis", "strain": "strain=KCTC 22121", "accession": "GCA_023283885.1", "taxid": 472183, "species_taxid": 472183, "relation_to_type": "type", "validated": true, "ani": 78.0383, "matched_fragments": 197, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella marina", "strain": "strain=JCM 15074", "accession": "GCA_000614975.1", "taxid": 487319, "species_taxid": 487319, "relation_to_type": "type", "validated": true, "ani": 78.0043, "matched_fragments": 162, "total_fragments": 1340, "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": 77.8124, "matched_fragments": 228, "total_fragments": 1340, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003605125.1", "gtdb_species": "s__Shewanella algidipiscicola", "ani": 99.9915, "matched_fragments": 1327, "total_fragments": 1340, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.64", "min_intra_species_ani": "98.64", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_000518705.1", "gtdb_species": "s__Shewanella colwelliana", "ani": 80.3172, "matched_fragments": 578, "total_fragments": 1340, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.91", "min_intra_species_ani": "98.91", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002215585.1", "gtdb_species": "s__Shewanella marisflavi", "ani": 79.7297, "matched_fragments": 514, "total_fragments": 1340, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.20", "min_intra_species_ani": "98.16", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_009831655.1", "gtdb_species": "s__Shewanella insulae", "ani": 79.5177, "matched_fragments": 465, "total_fragments": 1340, "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_000832025.1", "gtdb_species": "s__Shewanella sp000832025", "ani": 79.5176, "matched_fragments": 469, "total_fragments": 1340, "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_000016065.1", "gtdb_species": "s__Shewanella loihica", "ani": 79.3197, "matched_fragments": 487, "total_fragments": 1340, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.22", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000518605.1", "gtdb_species": "s__Shewanella fidelis", "ani": 78.7635, "matched_fragments": 286, "total_fragments": 1340, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.11", "min_intra_species_ani": "97.11", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003966265.1", "gtdb_species": "s__Shewanella atlantica", "ani": 78.6793, "matched_fragments": 322, "total_fragments": 1340, "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_000018285.1", "gtdb_species": "s__Shewanella pealeana", "ani": 78.6497, "matched_fragments": 338, "total_fragments": 1340, "gtdb_taxonomy": 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Shewanella", "algidipiscicola" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }