{ "type": "genome", "identifier": "GCF_001653135.1", "organism": "Pseudoalteromonas neustonica", "title": "Pseudoalteromonas neustonica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Korea Polar Research Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001653135.1", "bioproject": "PRJNA224116", "biosample": "SAMD00051355", "wgs_master": "BDDS00000000.1", "refseq_category": "reference genome", "taxid": "1840331", "species_taxid": "1840331", "organism_name": "Pseudoalteromonas neustonica", "infraspecific_name": "strain=PAMC 28425", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/05/11", "asm_name": "ASM165313v1", "asm_submitter": "Korea Polar Research Institute", "gbrs_paired_asm": "GCA_001653135.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/653/135/GCF_001653135.1_ASM165313v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4972584", "genome_size_ungapped": "4972584", "gc_percent": "39.500000", "replicon_count": "0", "scaffold_count": "66", "contig_count": "66", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001653135.1-RS_2024_08_12", "annotation_date": "2024-08-12", "total_gene_count": "4473", "protein_coding_gene_count": "4295", "non_coding_gene_count": "113", "pubmed_id": "27260339" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-05-11", "dateModified": "2016-05-11", "datePublished": "2016-05-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoalteromonas neustonica" ], "sample_taxid": [ "1840331" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica:Ross Sea" ], "sample_host_location_id": [], "data_size": "1.406 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)": "4972584", "Number of Sequences": "66", "Longest Sequences (bp)": "729172", "N50 (bp)": "313432", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "39.7", "Number of CDSs": "4314", "Average Protein Length": "330.9", "Coding Ratio (%)": "86.1", "Number of rRNAs": "13", "Number of tRNAs": "97", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoalteromonas neustonica", "strain": "strain=PAMC 28425", "accession": "GCA_001653135.1", "taxid": 1840331, "species_taxid": 1840331, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1624, "total_fragments": 1628, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudoalteromonas rhizosphaerae", "strain": "strain=RA15", "accession": "GCA_902498845.1", "taxid": 2518973, "species_taxid": 2518973, "relation_to_type": "type", "validated": true, "ani": 83.0101, "matched_fragments": 937, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas ostreae", "strain": "strain=hOe-66", "accession": "GCA_018069805.1", "taxid": 2774154, "species_taxid": 2774154, "relation_to_type": "type", "validated": true, "ani": 82.6025, "matched_fragments": 880, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas prydzensis", "strain": "strain=ACAM 620", "accession": "GCA_014925355.1", "taxid": 182141, "species_taxid": 182141, "relation_to_type": "type", "validated": true, "ani": 82.3391, "matched_fragments": 900, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas prydzensis", "strain": "strain=DSM 14232", "accession": "GCA_001661495.1", "taxid": 182141, "species_taxid": 182141, "relation_to_type": "type", "validated": true, "ani": 82.2981, "matched_fragments": 883, "total_fragments": 1628, "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": 80.5968, "matched_fragments": 608, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Parashewanella hymeniacidonis", "strain": "strain=202IG2-18", "accession": "GCA_016900895.1", "taxid": 2807618, "species_taxid": 2807618, "relation_to_type": "type", "validated": true, "ani": 77.6129, "matched_fragments": 63, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001653135.1", "gtdb_species": "s__Pseudoalteromonas neustonica", "ani": 100.0, "matched_fragments": 1624, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.11", "min_intra_species_ani": "98.62", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCF_012927645.1", "gtdb_species": "s__Pseudoalteromonas arctica_A", "ani": 83.1205, "matched_fragments": 810, "total_fragments": 1628, "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_902498845.1", "gtdb_species": "s__Pseudoalteromonas rhizosphaerae", "ani": 83.0293, "matched_fragments": 934, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.81", "min_intra_species_ani": "97.24", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.81", "num_clustered_genomes": 17, "status": "-" }, { "accession": "GCF_018069805.1", "gtdb_species": "s__Pseudoalteromonas sp018069805", "ani": 82.609, "matched_fragments": 880, "total_fragments": 1628, "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_000238355.1", "gtdb_species": "s__Pseudoalteromonas haloplanktis", "ani": 82.4184, "matched_fragments": 885, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.55", "min_intra_species_ani": "99.12", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001661495.1", "gtdb_species": "s__Pseudoalteromonas prydzensis", "ani": 82.3095, "matched_fragments": 882, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.53", "min_intra_species_ani": "97.08", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.82", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_011050055.1", "gtdb_species": "s__Pseudoalteromonas prydzensis_A", "ani": 82.0041, "matched_fragments": 826, "total_fragments": 1628, "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_008370255.1", "gtdb_species": "s__Pseudoalteromonas sp008370255", "ani": 80.5023, "matched_fragments": 607, "total_fragments": 1628, "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": "-" } ] }, "_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", "neustonica" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }