{ "type": "genome", "identifier": "GCF_013140855.1", "organism": "Pseudoalteromonas caenipelagi", "title": "Pseudoalteromonas caenipelagi", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Sungkyunkwan University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013140855.1", "bioproject": "PRJNA224116", "biosample": "SAMN14604090", "wgs_master": "JABBPG000000000.1", "refseq_category": "reference genome", "taxid": "2726988", "species_taxid": "2726988", "organism_name": "Pseudoalteromonas caenipelagi", "infraspecific_name": "strain=JBTF-M23", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/05/21", "asm_name": "ASM1314085v1", "asm_submitter": "Sungkyunkwan University", "gbrs_paired_asm": "GCA_013140855.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/140/855/GCF_013140855.1_ASM1314085v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5082770", "genome_size_ungapped": "5082770", "gc_percent": "42.000000", "replicon_count": "0", "scaffold_count": "33", "contig_count": "33", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013140855.1-RS_2024_08_07", "annotation_date": "2024-08-07", "total_gene_count": "4446", "protein_coding_gene_count": "4290", "non_coding_gene_count": "113", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-05-21", "dateModified": "2020-05-21", "datePublished": "2020-05-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoalteromonas caenipelagi" ], "sample_taxid": [ "2726988" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Jebu island" ], "sample_host_location_id": [], "data_size": "1.446 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)": "5082770", "Number of Sequences": "33", "Longest Sequences (bp)": "1061391", "N50 (bp)": "469452", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "42.0", "Number of CDSs": "4330", "Average Protein Length": "344.5", "Coding Ratio (%)": "88.0", "Number of rRNAs": "4", "Number of tRNAs": "100", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoalteromonas caenipelagi", "strain": "strain=JBTF-M23", "accession": "GCA_013140855.1", "taxid": 2726988, "species_taxid": 2726988, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1678, "total_fragments": 1679, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudoalteromonas byunsanensis", "strain": "strain=JCM 12483", "accession": "GCA_001854475.1", "taxid": 327939, "species_taxid": 327939, "relation_to_type": "type", "validated": true, "ani": 80.863, "matched_fragments": 724, "total_fragments": 1679, "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": 80.8154, "matched_fragments": 707, "total_fragments": 1679, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas aurantia", "strain": "strain=208", "accession": "GCA_014858725.1", "taxid": 43654, "species_taxid": 43654, "relation_to_type": "type", "validated": true, "ani": 79.4749, "matched_fragments": 367, "total_fragments": 1679, "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": 79.4243, "matched_fragments": 390, "total_fragments": 1679, "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": 79.1744, "matched_fragments": 330, "total_fragments": 1679, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas lipolytica", "strain": "strain=LMEB 39", "accession": "GCA_014925285.1", "taxid": 570156, "species_taxid": 570156, "relation_to_type": "suspected-type", "validated": true, "ani": 78.7534, "matched_fragments": 259, "total_fragments": 1679, "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": 78.6243, "matched_fragments": 257, "total_fragments": 1679, "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": 78.6211, "matched_fragments": 261, "total_fragments": 1679, "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": 78.3713, "matched_fragments": 192, "total_fragments": 1679, "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": 78.333, "matched_fragments": 230, "total_fragments": 1679, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas arctica", "strain": "strain=A 37-1-2", "accession": "GCA_000238395.4", "taxid": 394751, "species_taxid": 394751, "relation_to_type": "type", "validated": true, "ani": 78.1642, "matched_fragments": 233, "total_fragments": 1679, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Motilimonas cestriensis", "strain": "strain=MKS20", "accession": "GCA_021295315.1", "taxid": 2742685, "species_taxid": 2742685, "relation_to_type": "type", "validated": true, "ani": 76.5711, "matched_fragments": 67, "total_fragments": 1679, "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": 75.627, "matched_fragments": 57, "total_fragments": 1679, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013140855.1", "gtdb_species": "s__Pseudoalteromonas caenipelagi", "ani": 100.0, "matched_fragments": 1678, "total_fragments": 1679, "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": "conclusive" }, { "accession": "GCF_014694405.1", "gtdb_species": "s__Pseudoalteromonas sp014694405", "ani": 87.5769, "matched_fragments": 1272, "total_fragments": 1679, "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_009176705.1", "gtdb_species": "s__Pseudoalteromonas sp009176705", "ani": 83.0441, "matched_fragments": 1070, "total_fragments": 1679, "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_002964665.1", "gtdb_species": "s__Pseudoalteromonas sp002964665", "ani": 80.974, 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78.6062, "matched_fragments": 262, "total_fragments": 1679, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.07", "min_intra_species_ani": "98.83", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.86", "num_clustered_genomes": 12, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.241, "cell_length": 0.166, "doubling_h": 0.348, "growth_tmp": 24.342, "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", "caenipelagi" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }