{ "type": "genome", "identifier": "GCF_014858725.1", "organism": "Pseudoalteromonas aurantia 208", "title": "Pseudoalteromonas aurantia 208", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shandong University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014858725.1", "bioproject": "PRJNA224116", "biosample": "SAMN03380234", "wgs_master": "AQGV00000000.1", "refseq_category": "reference genome", "taxid": "1314867", "species_taxid": "43654", "organism_name": "Pseudoalteromonas aurantia 208", "infraspecific_name": "strain=208", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/07", "asm_name": "ASM1485872v1", "asm_submitter": "Shandong University", "gbrs_paired_asm": "GCA_014858725.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/858/725/GCF_014858725.1_ASM1485872v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5602374", "genome_size_ungapped": "5602374", "gc_percent": "41.000000", "replicon_count": "0", "scaffold_count": "15", "contig_count": "15", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014858725.1-RS_2024_11_18", "annotation_date": "2024-11-18", "total_gene_count": "4723", "protein_coding_gene_count": "4542", "non_coding_gene_count": "146", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-10-07", "dateModified": "2020-10-07", "datePublished": "2020-10-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoalteromonas aurantia 208" ], "sample_taxid": [ "1314867" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "France: Nice" ], "sample_host_location_id": [], "data_size": "1.586 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)": "5602374", "Number of Sequences": "15", "Longest Sequences (bp)": "2589228", "N50 (bp)": "1267804", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.8", "Number of CDSs": "4607", "Average Protein Length": "353.1", "Coding Ratio (%)": "87.1", "Number of rRNAs": "14", "Number of tRNAs": "122", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoalteromonas aurantia", "strain": "strain=208", "accession": "GCA_014858725.1", "taxid": 43654, "species_taxid": 43654, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1861, "total_fragments": 1862, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudoalteromonas citrea", "strain": "strain=DSM 8771", "accession": "GCA_000238375.4", "taxid": 43655, "species_taxid": 43655, "relation_to_type": "type", "validated": true, "ani": 83.0188, "matched_fragments": 883, "total_fragments": 1862, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas amylolytica", "strain": "strain=JW1", "accession": "GCA_001854605.1", "taxid": 1859457, "species_taxid": 1859457, "relation_to_type": "type", "validated": true, "ani": 79.91, "matched_fragments": 354, "total_fragments": 1862, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas caenipelagi", "strain": "strain=JBTF-M23", "accession": "GCA_013140855.1", "taxid": 2726988, "species_taxid": 2726988, "relation_to_type": "type", "validated": true, "ani": 79.697, "matched_fragments": 362, "total_fragments": 1862, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas byunsanensis", "strain": "strain=JCM 12483", "accession": "GCA_001854475.1", "taxid": 327939, "species_taxid": 327939, "relation_to_type": "type", "validated": true, "ani": 79.3629, "matched_fragments": 381, "total_fragments": 1862, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas phenolica", "strain": "strain=KCTC 12086", "accession": "GCA_001444405.1", "taxid": 161398, "species_taxid": 161398, "relation_to_type": "suspected-type", "validated": true, "ani": 79.3536, "matched_fragments": 312, "total_fragments": 1862, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas phenolica", "strain": "strain=O-BC30", "accession": "GCA_014925335.1", "taxid": 161398, "species_taxid": 161398, "relation_to_type": "suspected-type", "validated": true, "ani": 79.169, "matched_fragments": 310, "total_fragments": 1862, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas issachenkonii", "strain": "strain=KCTC 12958", "accession": "GCA_001455325.1", "taxid": 152297, "species_taxid": 152297, "relation_to_type": "suspected-type", "validated": true, "ani": 78.8624, "matched_fragments": 238, "total_fragments": 1862, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas issachenkonii", "strain": "strain=KMM 3549", "accession": "GCA_002310795.1", "taxid": 152297, "species_taxid": 152297, "relation_to_type": "suspected-type", "validated": true, "ani": 78.798, "matched_fragments": 238, "total_fragments": 1862, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas phenolica", "strain": "strain=O-BC30", "accession": "GCA_004103265.1", "taxid": 161398, "species_taxid": 161398, "relation_to_type": "suspected-type", "validated": true, "ani": 78.7552, "matched_fragments": 288, "total_fragments": 1862, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas neustonica", "strain": "strain=PAMC 28425", "accession": "GCA_001653135.1", "taxid": 1840331, "species_taxid": 1840331, "relation_to_type": "type", "validated": true, "ani": 78.4085, "matched_fragments": 252, "total_fragments": 1862, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Colwellia ponticola", "strain": "strain=OISW-25", "accession": "GCA_005885605.1", "taxid": 2304625, "species_taxid": 2304625, "relation_to_type": "type", "validated": true, "ani": 76.3137, "matched_fragments": 69, "total_fragments": 1862, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014858725.1", "gtdb_species": "s__Pseudoalteromonas aurantia", "ani": 100.0, "matched_fragments": 1861, "total_fragments": 1862, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.50", "min_intra_species_ani": "97.26", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_003590335.1", "gtdb_species": "s__Pseudoalteromonas sp003590335", "ani": 83.1268, "matched_fragments": 941, "total_fragments": 1862, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.57", "min_intra_species_ani": "97.56", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000238375.3", "gtdb_species": "s__Pseudoalteromonas citrea", "ani": 82.9576, "matched_fragments": 890, "total_fragments": 1862, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "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_005886875.1", "gtdb_species": "s__Pseudoalteromonas aurantia_A", "ani": 82.8761, "matched_fragments": 797, "total_fragments": 1862, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.47", "min_intra_species_ani": "99.41", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001854605.1", "gtdb_species": "s__Pseudoalteromonas amylolytica", "ani": 79.9137, "matched_fragments": 351, "total_fragments": 1862, 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"gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "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_001444405.1", "gtdb_species": "s__Pseudoalteromonas phenolica", "ani": 79.2302, "matched_fragments": 309, "total_fragments": 1862, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", "min_intra_species_ani": "98.61", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001625695.1", "gtdb_species": "s__Pseudoalteromonas luteoviolacea_B", "ani": 78.5641, "matched_fragments": 280, "total_fragments": 1862, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.59", "min_intra_species_ani": "99.39", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.96", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.302, "cell_length": 0.176, "doubling_h": 0.348, "growth_tmp": 23.5, "optimum_tmp": 24.901, "optimum_ph": 7.588, "genome_size": 4777827.727, "gc_content": 41.108, "coding_genes": 3972.54, "rRNA16S_genes": 8.705, "tRNA_genes": 104.429, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.941, "range_salinity": 0.8, "facultative_respiration": 0.083, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.916, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Pseudoalteromonas", "aurantia", "208" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }