{ "type": "genome", "identifier": "GCF_007004545.3", "organism": "Shewanella eurypsychrophilus", "title": "Shewanella eurypsychrophilus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Third Institute of Oceanography, State of Oceanic Administration", "publication": [ {} ], "properties": { "assembly_accession": "GCF_007004545.3", "bioproject": "PRJNA224116", "biosample": "SAMN12228874", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2593656", "species_taxid": "2593656", "organism_name": "Shewanella eurypsychrophilus", "infraspecific_name": "strain=YLB-08", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/07/19", "asm_name": "ASM700454v3", "asm_submitter": "Third Institute of Oceanography, State of Oceanic Administration", "gbrs_paired_asm": "GCA_007004545.3", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/007/004/545/GCF_007004545.3_ASM700454v3", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5851320", "genome_size_ungapped": "5851320", "gc_percent": "43.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_007004545.3-RS_2024_03_13", "annotation_date": "2024-03-13", "total_gene_count": "5056", "protein_coding_gene_count": "4835", "non_coding_gene_count": "168", "pubmed_id": "34653843" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-07-19", "dateModified": "2021-07-19", "datePublished": "2021-07-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Shewanella eurypsychrophilus" ], "sample_taxid": [ "2593656" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Indian Ocean" ], "sample_host_location_id": [], "data_size": "1.659 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": 4.0, "max": 4.0 }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5851320", "Number of Sequences": "1", "Longest Sequences (bp)": "5851320", "N50 (bp)": "5851320", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "43.5", "Number of CDSs": "4896", "Average Protein Length": "331.1", "Coding Ratio (%)": "83.1", "Number of rRNAs": "40", "Number of tRNAs": "122", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Shewanella eurypsychrophilus", "strain": "strain=YLB-08", "accession": "GCA_007004545.3", "taxid": 2593656, "species_taxid": 2593656, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1947, "total_fragments": 1950, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Shewanella psychrophila", "strain": "strain=WP2", "accession": "GCA_002005305.1", "taxid": 225848, "species_taxid": 225848, "relation_to_type": "type", "validated": true, "ani": 82.8594, "matched_fragments": 1099, "total_fragments": 1950, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella benthica", "strain": "strain=DSM 8812", "accession": "GCA_015069875.1", "taxid": 43661, "species_taxid": 43661, "relation_to_type": "type", "validated": true, "ani": 82.6055, "matched_fragments": 810, "total_fragments": 1950, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella psychropiezotolerans", "strain": "strain=YLB-06", "accession": "GCA_007197555.1", "taxid": 2593655, "species_taxid": 2593655, "relation_to_type": "type", "validated": true, "ani": 82.3326, "matched_fragments": 1121, "total_fragments": 1950, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella violacea", "strain": "strain=DSS12", "accession": "GCA_000091325.1", "taxid": 60217, "species_taxid": 60217, "relation_to_type": "type", "validated": true, "ani": 81.3129, "matched_fragments": 866, "total_fragments": 1950, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella canadensis", "strain": "strain=HAW-EB2", "accession": "GCA_003966225.1", "taxid": 271096, "species_taxid": 271096, "relation_to_type": "type", "validated": true, "ani": 80.3943, "matched_fragments": 674, "total_fragments": 1950, "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": 80.0148, "matched_fragments": 635, "total_fragments": 1950, "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": 79.411, "matched_fragments": 392, "total_fragments": 1950, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella gelidimarina", "strain": "strain=ATCC 700752", "accession": "GCA_023283945.1", "taxid": 56813, "species_taxid": 56813, "relation_to_type": "type", "validated": true, "ani": 79.0918, "matched_fragments": 396, "total_fragments": 1950, "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": 78.6002, "matched_fragments": 396, "total_fragments": 1950, "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": 77.8569, "matched_fragments": 182, "total_fragments": 1950, "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": 77.6588, "matched_fragments": 177, "total_fragments": 1950, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella corallii", "strain": "strain=DSM 21332", "accession": "GCA_023349125.1", "taxid": 560080, "species_taxid": 560080, "relation_to_type": "type", "validated": true, "ani": 77.5912, "matched_fragments": 142, "total_fragments": 1950, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_007004545.2", "gtdb_species": "s__Shewanella sp007004545", "ani": 99.9546, "matched_fragments": 1911, "total_fragments": 1950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_002005305.1", "gtdb_species": "s__Shewanella psychrophila", "ani": 82.8534, "matched_fragments": 1099, "total_fragments": 1950, "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_015069875.1", "gtdb_species": "s__Shewanella benthica", "ani": 82.5876, "matched_fragments": 814, "total_fragments": 1950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.81", "min_intra_species_ani": "96.81", "mean_intra_species_af": "0.66", "min_intra_species_af": "0.66", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_007197555.1", "gtdb_species": "s__Shewanella sp007197555", "ani": 82.3432, "matched_fragments": 1118, "total_fragments": 1950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.43", "min_intra_species_ani": "99.43", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000172075.1", "gtdb_species": "s__Shewanella benthica_A", "ani": 81.5466, "matched_fragments": 856, "total_fragments": 1950, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.25", "min_intra_species_ani": "96.25", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000091325.1", "gtdb_species": "s__Shewanella violacea", "ani": 81.3252, "matched_fragments": 867, "total_fragments": 1950, "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": 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79.6148, "matched_fragments": 386, "total_fragments": 1950, "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": 79.3809, "matched_fragments": 420, "total_fragments": 1950, "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_003605125.1", "gtdb_species": "s__Shewanella algidipiscicola", "ani": 78.5543, "matched_fragments": 334, 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"filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Shewanella", "eurypsychrophilus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }