{ "type": "genome", "identifier": "GCF_014647855.1", "organism": "Shewanella gelidii", "title": "Shewanella gelidii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014647855.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245304", "wgs_master": "BMPZ00000000.1", "refseq_category": "reference genome", "taxid": "1642821", "species_taxid": "1642821", "organism_name": "Shewanella gelidii", "infraspecific_name": "strain=JCM 30804", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1464785v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014647855.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/647/855/GCF_014647855.1_ASM1464785v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3904844", "genome_size_ungapped": "3904794", "gc_percent": "44.000000", "replicon_count": "0", "scaffold_count": "38", "contig_count": "38", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014647855.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "3482", "protein_coding_gene_count": "3354", "non_coding_gene_count": "95", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-12", "dateModified": "2020-09-12", "datePublished": "2020-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Shewanella gelidii" ], "sample_taxid": [ "1642821" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.115 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)": "3904844", "Number of Sequences": "38", "Longest Sequences (bp)": "820205", "N50 (bp)": "512178", "Gap Ratio (%)": "0.001280", "GCcontent (%)": "44.2", "Number of CDSs": "3361", "Average Protein Length": "328.6", "Coding Ratio (%)": "84.8", "Number of rRNAs": "1", "Number of tRNAs": "87", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Shewanella gelidii", "strain": "strain=JCM 30804", "accession": "GCA_014647855.1", "taxid": 1642821, "species_taxid": 1642821, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1282, "total_fragments": 1285, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Shewanella gelidii", "strain": "strain=KCTC 42663", "accession": "GCA_023283645.1", "taxid": 1642821, "species_taxid": 1642821, "relation_to_type": "type", "validated": true, "ani": 99.9878, "matched_fragments": 1275, "total_fragments": 1285, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Shewanella denitrificans", "strain": "strain=OS217", "accession": "GCA_000013765.1", "taxid": 192073, "species_taxid": 192073, "relation_to_type": "type", "validated": true, "ani": 78.6687, "matched_fragments": 127, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella profunda", "strain": "strain=DSM 15900", "accession": "GCA_023283765.1", "taxid": 254793, "species_taxid": 254793, "relation_to_type": "type", "validated": true, "ani": 78.4673, "matched_fragments": 161, "total_fragments": 1285, "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": 78.3217, "matched_fragments": 154, "total_fragments": 1285, "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": 78.2811, "matched_fragments": 173, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella schlegeliana", "strain": "strain=JCM 11561", "accession": "GCA_016765635.1", "taxid": 190308, "species_taxid": 190308, "relation_to_type": "type", "validated": true, "ani": 78.2521, "matched_fragments": 165, "total_fragments": 1285, "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": 78.2398, "matched_fragments": 151, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella pealeana", "strain": "strain=ATCC 700345", "accession": "GCA_000018285.1", "taxid": 70864, "species_taxid": 70864, "relation_to_type": "type", "validated": true, "ani": 78.2251, "matched_fragments": 172, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella halifaxensis", "strain": "strain=HAW-EB4", "accession": "GCA_000019185.1", "taxid": 271098, "species_taxid": 271098, "relation_to_type": "type", "validated": true, "ani": 78.2141, "matched_fragments": 169, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella litoralis", "strain": "strain=JCM 32306", "accession": "GCA_014648335.1", "taxid": 2282700, "species_taxid": 2282700, "relation_to_type": "type", "validated": true, "ani": 78.187, "matched_fragments": 167, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella schlegeliana", "strain": "strain=JCM 11561", "accession": "GCA_019654995.1", "taxid": 190308, "species_taxid": 190308, "relation_to_type": "type", "validated": true, "ani": 78.1727, "matched_fragments": 166, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella glacialimarina", "strain": "strain=TZS-4", "accession": "GCA_020511155.1", "taxid": 2590884, "species_taxid": 2590884, "relation_to_type": "type", "validated": true, "ani": 78.1705, "matched_fragments": 146, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella marinintestina", "strain": "strain=LMG 21403", "accession": "GCA_023283845.1", "taxid": 190305, "species_taxid": 190305, "relation_to_type": "type", "validated": true, "ani": 78.1421, "matched_fragments": 184, "total_fragments": 1285, "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": 78.1358, "matched_fragments": 187, "total_fragments": 1285, "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": 78.0756, "matched_fragments": 169, "total_fragments": 1285, "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": 78.0699, "matched_fragments": 181, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella electrodiphila", "strain": "strain=DSM 24955", "accession": "GCA_023283985.1", "taxid": 934143, "species_taxid": 934143, "relation_to_type": "type", "validated": true, "ani": 77.9793, "matched_fragments": 167, "total_fragments": 1285, "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": 77.9306, "matched_fragments": 184, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella olleyana", "strain": "strain=LMG 21437", "accession": "GCA_023283825.1", "taxid": 135626, "species_taxid": 135626, "relation_to_type": "type", "validated": true, "ani": 77.8609, "matched_fragments": 167, "total_fragments": 1285, "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": 77.7379, "matched_fragments": 169, "total_fragments": 1285, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014647855.1", "gtdb_species": "s__Shewanella gelidii", "ani": 100.0, "matched_fragments": 1282, "total_fragments": 1285, "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": "conclusive" }, { "accession": "GCF_000013765.1", "gtdb_species": "s__Shewanella denitrificans", "ani": 78.6792, "matched_fragments": 128, "total_fragments": 1285, "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_014163735.1", "gtdb_species": "s__Shewanella sp014163735", "ani": 78.6603, "matched_fragments": 135, "total_fragments": 1285, "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_016406325.1", "gtdb_species": "s__Shewanella putrefaciens", "ani": 78.5925, "matched_fragments": 160, "total_fragments": 1285, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.29", "min_intra_species_ani": "98.60", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 12, "status": "-" }, { "accession": "GCF_003966225.1", "gtdb_species": "s__Shewanella canadensis", "ani": 78.5127, "matched_fragments": 153, "total_fragments": 1285, "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_000014885.1", "gtdb_species": "s__Shewanella piezotolerans", "ani": 78.4658, "matched_fragments": 179, "total_fragments": 1285, "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_014647215.1", "gtdb_species": "s__Shewanella aestuarii", "ani": 78.4017, "matched_fragments": 154, "total_fragments": 1285, "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_016757755.1", "gtdb_species": "s__Shewanella sp016757755", "ani": 78.3977, "matched_fragments": 175, "total_fragments": 1285, "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_018221465.1", "gtdb_species": "s__Shewanella intestini", "ani": 78.3458, "matched_fragments": 153, "total_fragments": 1285, "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_014648295.1", "gtdb_species": "s__Shewanella saliphila", "ani": 78.2819, "matched_fragments": 173, "total_fragments": 1285, "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_016765635.1", "gtdb_species": "s__Shewanella schlegeliana", "ani": 78.2521, "matched_fragments": 165, "total_fragments": 1285, "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_001957125.1", "gtdb_species": 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"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_006385555.1", "gtdb_species": "s__Shewanella polaris", "ani": 78.0825, "matched_fragments": 167, "total_fragments": 1285, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.84", "min_intra_species_ani": "97.84", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014648035.1", "gtdb_species": "s__Shewanella algicola", "ani": 78.0699, "matched_fragments": 181, "total_fragments": 1285, "gtdb_taxonomy": 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