{ "type": "genome", "identifier": "GCF_001596815.1", "organism": "Pseudoalteromonas spiralis", "title": "Pseudoalteromonas spiralis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institute of Oceanology, Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001596815.1", "bioproject": "PRJNA224116", "biosample": "SAMN04566108", "wgs_master": "LVCN00000000.1", "refseq_category": "reference genome", "taxid": "162157", "species_taxid": "162157", "organism_name": "Pseudoalteromonas spiralis", "infraspecific_name": "strain=DSM 16099", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/03/23", "asm_name": "ASM159681v1", "asm_submitter": "Institute of Oceanology, Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_001596815.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/596/815/GCF_001596815.1_ASM159681v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4166507", "genome_size_ungapped": "4166507", "gc_percent": "40.000000", "replicon_count": "0", "scaffold_count": "87", "contig_count": "87", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001596815.1-RS_2024_07_09", "annotation_date": "2024-07-09", "total_gene_count": "3888", "protein_coding_gene_count": "3506", "non_coding_gene_count": "124", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-03-23", "dateModified": "2016-03-23", "datePublished": "2016-03-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoalteromonas spiralis" ], "sample_taxid": [ "162157" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean: Juan de Fuca Ridge" ], "sample_host_location_id": [], "data_size": "1.184 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)": "4166507", "Number of Sequences": "87", "Longest Sequences (bp)": "283939", "N50 (bp)": "108041", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.2", "Number of CDSs": "3882", "Average Protein Length": "311.5", "Coding Ratio (%)": "87.1", "Number of rRNAs": "7", "Number of tRNAs": "86", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "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": 98.1479, "matched_fragments": 1251, "total_fragments": 1350, "ani_threshold": 95, "status": "inconclusive" }, { "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": 98.1361, "matched_fragments": 1256, "total_fragments": 1350, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Pseudoalteromonas tetraodonis", "strain": "strain=NBRC 103034", "accession": "GCA_007991235.1", "taxid": 43659, "species_taxid": 43659, "relation_to_type": "suspected-type", "validated": true, "ani": 98.1294, "matched_fragments": 1209, "total_fragments": 1350, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Pseudoalteromonas tetraodonis", "strain": "strain=GFC", "accession": "GCA_002310835.1", "taxid": 43659, "species_taxid": 43659, "relation_to_type": "suspected-type", "validated": true, "ani": 98.1096, "matched_fragments": 1249, "total_fragments": 1350, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Pseudoalteromonas undina", "strain": "strain=DSM 6065", "accession": "GCA_000238275.4", "taxid": 43660, "species_taxid": 43660, "relation_to_type": "type", "validated": true, "ani": 90.9167, "matched_fragments": 1158, "total_fragments": 1350, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas distincta", "strain": "strain=ATCC 700518", "accession": "GCA_000814675.1", "taxid": 77608, "species_taxid": 77608, "relation_to_type": "type", "validated": true, "ani": 81.641, "matched_fragments": 789, "total_fragments": 1350, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas rhizosphaerae", "strain": "strain=RA15", "accession": "GCA_902498845.1", "taxid": 2518973, "species_taxid": 2518973, "relation_to_type": "type", "validated": true, "ani": 81.2291, "matched_fragments": 657, "total_fragments": 1350, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella psychromarinicola", "strain": "strain=M2", "accession": "GCA_003855155.1", "taxid": 2487742, "species_taxid": 2487742, "relation_to_type": "type", "validated": true, "ani": 76.082, "matched_fragments": 73, "total_fragments": 1350, "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": 75.9031, "matched_fragments": 81, "total_fragments": 1350, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella psychromarinicola", "strain": "strain=JCM 32090", "accession": "GCA_023283865.1", "taxid": 2487742, "species_taxid": 2487742, "relation_to_type": "type", "validated": true, "ani": 75.6959, "matched_fragments": 68, "total_fragments": 1350, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002310835.1", "gtdb_species": "s__Pseudoalteromonas tetraodonis", "ani": 98.1176, "matched_fragments": 1248, "total_fragments": 1350, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.76", "min_intra_species_ani": "96.28", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.84", "num_clustered_genomes": 28, "status": "conclusive" }, { "accession": "GCA_018402495.1", "gtdb_species": "s__Pseudoalteromonas sp018402495", "ani": 92.5632, "matched_fragments": 1055, "total_fragments": 1350, "gtdb_taxonomy": 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1350, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 96.0242, "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_008370255.1", "gtdb_species": "s__Pseudoalteromonas sp008370255", "ani": 81.3055, "matched_fragments": 787, "total_fragments": 1350, "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_011378855.1", "gtdb_species": "s__Pseudoalteromonas sp011378855", "ani": 81.2847, "matched_fragments": 762, "total_fragments": 1350, 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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", "spiralis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }