{ "type": "genome", "identifier": "GCF_018223345.1", "organism": "Shewanella yunxiaonensis", "title": "Shewanella yunxiaonensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Agricultural Bio-resources Research Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_018223345.1", "bioproject": "PRJNA224116", "biosample": "SAMN18816500", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2829809", "species_taxid": "2829809", "organism_name": "Shewanella yunxiaonensis", "infraspecific_name": "strain=FJAT-54481", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/05/01", "asm_name": "ASM1822334v1", "asm_submitter": "Agricultural Bio-resources Research Institute", "gbrs_paired_asm": "GCA_018223345.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/018/223/345/GCF_018223345.1_ASM1822334v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3812587", "genome_size_ungapped": "3812587", "gc_percent": "48.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_018223345.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "3489", "protein_coding_gene_count": "3353", "non_coding_gene_count": "122", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-05-01", "dateModified": "2021-05-01", "datePublished": "2021-05-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Shewanella yunxiaonensis" ], "sample_taxid": [ "2829809" ], "sample_host_organism": [ "sediment" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Fujian Provience" ], "sample_host_location_id": [], "data_size": "1.086 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)": "3812587", "Number of Sequences": "1", "Longest Sequences (bp)": "3812587", "N50 (bp)": "3812587", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "48.2", "Number of CDSs": "3386", "Average Protein Length": "328.3", "Coding Ratio (%)": "87.5", "Number of rRNAs": "22", "Number of tRNAs": "95", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Shewanella yunxiaonensis", "strain": "strain=FJAT-54481", "accession": "GCA_018223345.1", "taxid": 2829809, "species_taxid": 2829809, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1268, "total_fragments": 1270, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Shewanella dokdonensis", "strain": "strain=DSM 23626", "accession": "GCA_018394335.1", "taxid": 712036, "species_taxid": 712036, "relation_to_type": "type", "validated": true, "ani": 81.8154, "matched_fragments": 747, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella fodinae", "strain": "strain=CCUG 57102", "accession": "GCA_023349145.1", "taxid": 552357, "species_taxid": 552357, "relation_to_type": "type", "validated": true, "ani": 81.2269, "matched_fragments": 720, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella fodinae", "strain": "strain=KCTC 22506", "accession": "GCA_014651955.1", "taxid": 552357, "species_taxid": 552357, "relation_to_type": "type", "validated": true, "ani": 81.2072, "matched_fragments": 719, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella avicenniae", "strain": "strain=FJAT-51800", "accession": "GCA_017354945.1", "taxid": 2814294, "species_taxid": 2814294, "relation_to_type": "type", "validated": true, "ani": 79.2079, "matched_fragments": 312, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella denitrificans", "strain": "strain=OS217", "accession": "GCA_000013765.1", "taxid": 192073, "species_taxid": 192073, "relation_to_type": "type", "validated": true, "ani": 78.8838, "matched_fragments": 99, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella oneidensis", "strain": "strain=MR-1", "accession": "GCA_013267215.1", "taxid": 70863, "species_taxid": 70863, "relation_to_type": "type", "validated": true, "ani": 78.7276, "matched_fragments": 157, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella mangrovi", "strain": "strain=YQH10", "accession": "GCA_000753795.1", "taxid": 1515746, "species_taxid": 1515746, "relation_to_type": "type", "validated": true, "ani": 78.5089, "matched_fragments": 323, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella oneidensis", "strain": "strain=MR-1", "accession": "GCA_000146165.2", "taxid": 70863, "species_taxid": 70863, "relation_to_type": "type", "validated": true, "ani": 78.5031, "matched_fragments": 160, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella seohaensis", "strain": "strain=KCTC 23556", "accession": "GCA_025449215.1", "taxid": 755175, "species_taxid": 755175, "relation_to_type": "type", "validated": true, "ani": 78.4598, "matched_fragments": 162, "total_fragments": 1270, "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": 78.0058, "matched_fragments": 154, "total_fragments": 1270, "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": 77.7091, "matched_fragments": 96, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella seohaensis", "strain": "strain=CCUG 60900", "accession": "GCA_023283775.1", "taxid": 755175, "species_taxid": 755175, "relation_to_type": "type", "validated": true, "ani": 77.4892, "matched_fragments": 158, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella algidipiscicola", "strain": "strain=LMG 23746", "accession": "GCA_003605125.1", "taxid": 614070, "species_taxid": 614070, "relation_to_type": "type", "validated": true, "ani": 76.9174, "matched_fragments": 114, "total_fragments": 1270, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_018223345.1", "gtdb_species": "s__Shewanella sp018223345", "ani": 100.0, "matched_fragments": 1267, "total_fragments": 1270, "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_018394335.1", "gtdb_species": "s__Shewanella dokdonensis", "ani": 81.8034, "matched_fragments": 747, "total_fragments": 1270, "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_014651955.1", "gtdb_species": "s__Shewanella fodinae", "ani": 81.205, "matched_fragments": 720, "total_fragments": 1270, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.57", "min_intra_species_ani": "97.13", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_006494715.1", "gtdb_species": "s__Shewanella sp006494715", "ani": 79.6443, "matched_fragments": 123, "total_fragments": 1270, "gtdb_taxonomy": 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