{ "type": "genome", "identifier": "GCF_000518705.1", "organism": "Shewanella colwelliana ATCC 39565", "title": "Shewanella colwelliana ATCC 39565", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000518705.1", "bioproject": "PRJNA224116", "biosample": "SAMN02584968", "wgs_master": "JAEC00000000.1", "refseq_category": "na", "taxid": "1336240", "species_taxid": "23", "organism_name": "Shewanella colwelliana ATCC 39565", "infraspecific_name": "strain=ATCC 39565", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/01/13", "asm_name": "ASM51870v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000518705.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/518/705/GCF_000518705.1_ASM51870v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4575622", "genome_size_ungapped": "4570834", "gc_percent": "45.500000", "replicon_count": "0", "scaffold_count": "58", "contig_count": "66", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000518705.1-RS_2024_05_15", "annotation_date": "2024-05-15", "total_gene_count": "4076", "protein_coding_gene_count": "3927", "non_coding_gene_count": "70", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-01-13", "dateModified": "2014-01-13", "datePublished": "2014-01-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Shewanella colwelliana ATCC 39565" ], "sample_taxid": [ "1336240" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], 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1498, "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": 80.4353, "matched_fragments": 584, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella algidipiscicola", "strain": "strain=LMG 23746", "accession": "GCA_019655175.1", "taxid": 614070, "species_taxid": 614070, "relation_to_type": "type", "validated": true, "ani": 80.3876, "matched_fragments": 574, "total_fragments": 1498, "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": 80.1187, "matched_fragments": 573, "total_fragments": 1498, "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": 79.9307, "matched_fragments": 514, "total_fragments": 1498, "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": 79.8063, "matched_fragments": 519, "total_fragments": 1498, "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": 79.7136, "matched_fragments": 526, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella waksmanii", "strain": "strain=ATCC BAA-643", "accession": "GCA_000518805.1", "taxid": 213783, "species_taxid": 213783, "relation_to_type": "type", "validated": true, "ani": 79.2785, "matched_fragments": 394, "total_fragments": 1498, "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": 78.9254, "matched_fragments": 373, "total_fragments": 1498, "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": 78.9183, "matched_fragments": 374, "total_fragments": 1498, "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": 78.915, "matched_fragments": 377, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella nanhaiensis", "strain": "strain=NR704-98", "accession": "GCA_019457885.1", "taxid": 2864872, "species_taxid": 2864872, "relation_to_type": "type", "validated": true, "ani": 78.8369, "matched_fragments": 378, "total_fragments": 1498, "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": 78.1489, "matched_fragments": 217, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella marina", "strain": "strain=JCM 15074", "accession": "GCA_000614975.1", "taxid": 487319, "species_taxid": 487319, 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77.9111, "matched_fragments": 206, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000518705.1", "gtdb_species": "s__Shewanella colwelliana", "ani": 100.0, "matched_fragments": 1496, "total_fragments": 1498, "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": "conclusive" }, { "accession": "GCF_003605125.1", "gtdb_species": "s__Shewanella algidipiscicola", "ani": 80.4301, "matched_fragments": 583, "total_fragments": 1498, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Shewanellaceae;g__Shewanella", 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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": 79.7605, "matched_fragments": 525, "total_fragments": 1498, "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": 79.7053, "matched_fragments": 527, "total_fragments": 1498, "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", 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"gtdb_species": "s__Shewanella putrefaciens", "ani": 77.72, "matched_fragments": 257, "total_fragments": 1498, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.222, "cell_length": 0.096, "doubling_h": 0.077, "growth_tmp": 25.0, "optimum_tmp": 22.5, "optimum_ph": 7.147, "genome_size": 4598077.333, "gc_content": 45.4, "coding_genes": 4161.776, "rRNA16S_genes": 9.437, "tRNA_genes": 107.731, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 0.333, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.812, "thermophilic_range_tmp": 0.0, 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