{ "type": "genome", "identifier": "GCF_008808095.1", "organism": "Pseudoalteromonas ruthenica", "title": "Pseudoalteromonas ruthenica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shandong University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_008808095.1", "bioproject": "PRJNA224116", "biosample": "SAMN07620677", "wgs_master": "na", "refseq_category": "na", "taxid": "151081", "species_taxid": "151081", "organism_name": "Pseudoalteromonas ruthenica", "infraspecific_name": "strain=LMG 19699", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/10/03", "asm_name": "ASM880809v1", "asm_submitter": "Shandong University", "gbrs_paired_asm": "GCA_008808095.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/808/095/GCF_008808095.1_ASM880809v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4117705", "genome_size_ungapped": "4117705", "gc_percent": "47.500000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_008808095.1-RS_2024_08_24", "annotation_date": "2024-08-24", "total_gene_count": "3837", "protein_coding_gene_count": "3677", "non_coding_gene_count": "119", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-10-03", "dateModified": "2019-10-03", "datePublished": "2019-10-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoalteromonas ruthenica" ], "sample_taxid": [ "151081" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Russia: Troitza Bay, Pacific Institute Bio-organic Chemistry Marine Experimental Station" ], "sample_host_location_id": [], "data_size": "1.166 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)": "4117705", "Number of Sequences": "2", "Longest Sequences (bp)": "3269379", "N50 (bp)": "3269379", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "47.5", "Number of CDSs": "3764", "Average Protein Length": "327.0", "Coding Ratio (%)": "89.7", "Number of rRNAs": "22", "Number of tRNAs": "93", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoalteromonas ruthenica", "strain": "strain=LMG 19699", "accession": "GCA_008808095.1", "taxid": 151081, "species_taxid": 151081, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1371, "total_fragments": 1371, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudoalteromonas piscicida", "strain": "strain=JCM 20779", "accession": "GCA_000238315.4", "taxid": 43662, "species_taxid": 43662, "relation_to_type": "type", "validated": true, "ani": 79.3917, "matched_fragments": 187, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas spongiae", "strain": "strain=UST010723-006", "accession": "GCA_000238255.4", "taxid": 298657, "species_taxid": 298657, "relation_to_type": "type", "validated": true, "ani": 79.3153, "matched_fragments": 142, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas citrea", "strain": "strain=DSM 8771", "accession": "GCA_000238375.4", "taxid": 43655, "species_taxid": 43655, "relation_to_type": "type", "validated": true, "ani": 79.1052, "matched_fragments": 153, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas luteoviolacea", "strain": "strain=CH130", "accession": "GCA_014925325.1", "taxid": 43657, "species_taxid": 43657, "relation_to_type": "suspected-type", "validated": true, "ani": 79.023, "matched_fragments": 133, "total_fragments": 1371, "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": 79.0184, "matched_fragments": 188, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas espejiana", "strain": "strain=ATCC 29659", "accession": "GCA_002221525.1", "taxid": 28107, "species_taxid": 28107, "relation_to_type": "type", "validated": true, "ani": 78.9116, "matched_fragments": 172, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas luteoviolacea", "strain": "strain=DSM 6061", "accession": "GCA_001625655.1", "taxid": 43657, "species_taxid": 43657, "relation_to_type": "suspected-type", "validated": true, "ani": 78.6596, "matched_fragments": 123, "total_fragments": 1371, "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": 78.6509, "matched_fragments": 184, "total_fragments": 1371, "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": 78.6452, "matched_fragments": 156, "total_fragments": 1371, "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": 78.6299, "matched_fragments": 164, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas arabiensis", "strain": "strain=JCM 17292", "accession": "GCA_001550155.1", "taxid": 874454, "species_taxid": 874454, "relation_to_type": "type", "validated": true, "ani": 78.6053, "matched_fragments": 178, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas nigrifaciens", "strain": "strain=KMM 661", "accession": "GCA_002221505.1", "taxid": 28109, "species_taxid": 28109, "relation_to_type": "type", "validated": true, "ani": 78.5782, "matched_fragments": 182, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas flavipulchra", "strain": "strain=NCIMB 2033", "accession": "GCA_014858715.1", "taxid": 137779, "species_taxid": 137779, "relation_to_type": "suspected-type", "validated": true, "ani": 78.5571, "matched_fragments": 173, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas nigrifaciens", "strain": "strain=NCTC10691", "accession": "GCA_900455185.1", "taxid": 28109, "species_taxid": 28109, "relation_to_type": "type", "validated": true, "ani": 78.5156, "matched_fragments": 175, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas flavipulchra", "strain": "strain=LMG 20361", "accession": "GCA_014596995.1", "taxid": 137779, "species_taxid": 137779, "relation_to_type": "suspected-type", "validated": true, "ani": 78.506, "matched_fragments": 174, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas piscicida", "strain": "strain=ATCC 15057", "accession": "GCA_000382005.1", "taxid": 43662, "species_taxid": 43662, "relation_to_type": "type", "validated": true, "ani": 78.3117, "matched_fragments": 177, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas lipolytica", "strain": "strain=CGMCC 1.8499", "accession": "GCA_900116435.1", "taxid": 570156, "species_taxid": 570156, "relation_to_type": "suspected-type", "validated": true, "ani": 78.2904, "matched_fragments": 169, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas espejiana", "strain": "strain=NBRC 102222", "accession": "GCA_007989585.1", "taxid": 28107, "species_taxid": 28107, "relation_to_type": "type", "validated": true, "ani": 77.9546, "matched_fragments": 160, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Motilimonas eburnea", "strain": "strain=YH6", "accession": "GCA_021295345.1", "taxid": 1737488, "species_taxid": 1737488, "relation_to_type": "type", "validated": true, "ani": 76.6513, "matched_fragments": 54, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rheinheimera pacifica", "strain": "strain=DSM 17616", "accession": "GCA_900108485.1", "taxid": 173990, "species_taxid": 173990, "relation_to_type": "type", "validated": true, "ani": 76.546, "matched_fragments": 53, "total_fragments": 1371, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_008808095.1", "gtdb_species": "s__Pseudoalteromonas ruthenica", "ani": 100.0, "matched_fragments": 1371, "total_fragments": 1371, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.93", "min_intra_species_ani": "97.29", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 18, "status": "conclusive" }, { "accession": "GCF_002964785.1", "gtdb_species": "s__Pseudoalteromonas sp002964785", "ani": 79.7692, "matched_fragments": 425, "total_fragments": 1371, "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_001482385.1", "gtdb_species": "s__Pseudoalteromonas rubra_B", "ani": 79.702, "matched_fragments": 158, "total_fragments": 1371, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.23", "min_intra_species_ani": "95.23", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002964765.1", "gtdb_species": "s__Pseudoalteromonas sp002964765", "ani": 79.6693, "matched_fragments": 421, "total_fragments": 1371, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.33", "min_intra_species_ani": "98.12", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002964705.1", "gtdb_species": "s__Pseudoalteromonas sp002964705", "ani": 79.5928, "matched_fragments": 437, "total_fragments": 1371, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.66", "min_intra_species_ani": "96.66", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_017638925.1", "gtdb_species": "s__Pseudoalteromonas xiamenensis", "ani": 79.0596, "matched_fragments": 144, "total_fragments": 1371, "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_013391845.1", "gtdb_species": "s__Pseudoalteromonas sp002685175", "ani": 78.942, "matched_fragments": 197, "total_fragments": 1371, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.05", "min_intra_species_ani": "98.96", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.83", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_002221525.1", "gtdb_species": "s__Pseudoalteromonas espejiana", "ani": 78.9388, "matched_fragments": 171, "total_fragments": 1371, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001854475.1", "gtdb_species": "s__Pseudoalteromonas byunsanensis", "ani": 78.633, "matched_fragments": 164, 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24.342, "optimum_tmp": 24.901, "optimum_ph": 7.588, "genome_size": 4044669.667, "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", "ruthenica" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }