{ "type": "genome", "identifier": "GCA_002435155.1", "organism": "Pseudoalteromonas sp. UBA6508", "title": "Pseudoalteromonas sp. UBA6508", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of Queensland", "publication": [ {} ], "properties": { "assembly_accession": "GCA_002435155.1", "bioproject": "PRJNA348753", "biosample": "SAMN06457524", "wgs_master": "DJLU00000000.1", "refseq_category": "na", "taxid": "1947292", "species_taxid": "1947292", "organism_name": "Pseudoalteromonas sp. UBA6508", "infraspecific_name": "", "isolate": "UBA6508", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/10/04", "asm_name": "ASM243515v1", "submitter": "University of Queensland", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/002/435/155/GCA_002435155.1_ASM243515v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-10-04", "dateModified": "2017-10-04", "datePublished": "2017-10-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoalteromonas sp. UBA6508" ], "sample_taxid": [ "1947292" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.084 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 50.38, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3844550", "Number of Sequences": "163", "Longest Sequences (bp)": "99348", "N50 (bp)": "33406", "Gap Ratio (%)": "1.011848", "GCcontent (%)": "40.8", "Number of CDSs": "3291", "Average Protein Length": "321.4", "Coding Ratio (%)": "82.5", "Number of rRNAs": "0", "Number of tRNAs": "46", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoalteromonas espejiana", "strain": "strain=ATCC 29659", "accession": "GCA_002221525.1", "taxid": 28107, "species_taxid": 28107, "relation_to_type": "type", "validated": true, "ani": 87.1382, "matched_fragments": 1018, "total_fragments": 1206, "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": 87.0826, "matched_fragments": 1001, "total_fragments": 1206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas carrageenovora", "strain": "strain=IAM 12662", "accession": "GCA_014925295.1", "taxid": 227, "species_taxid": 227, "relation_to_type": "type", "validated": true, "ani": 85.8597, "matched_fragments": 933, "total_fragments": 1206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas carrageenovora", "strain": "strain=NBRC 12985", "accession": "GCA_006539245.1", "taxid": 227, "species_taxid": 227, "relation_to_type": "type", "validated": true, "ani": 85.8278, "matched_fragments": 904, "total_fragments": 1206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas carrageenovora", "strain": "strain=ATCC 43555", "accession": "GCA_900239935.1", "taxid": 227, "species_taxid": 227, "relation_to_type": "type", "validated": true, "ani": 85.7932, "matched_fragments": 945, "total_fragments": 1206, "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": 82.8357, "matched_fragments": 822, "total_fragments": 1206, "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": 82.4159, "matched_fragments": 801, "total_fragments": 1206, "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": 79.5423, "matched_fragments": 502, "total_fragments": 1206, "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": 75.9741, "matched_fragments": 54, "total_fragments": 1206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella ulleungensis", "strain": "strain=KCTC 62130", "accession": "GCA_023283965.1", "taxid": 2282699, "species_taxid": 2282699, "relation_to_type": "type", "validated": true, "ani": 75.7097, "matched_fragments": 51, "total_fragments": 1206, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 50.38, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_007988745.1", "gtdb_species": "s__Pseudoalteromonas atlantica", "ani": 97.9351, "matched_fragments": 1092, "total_fragments": 1206, "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": "97.66", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.85", "num_clustered_genomes": 29, "status": "conclusive" }, { "accession": "GCF_001401805.1", "gtdb_species": "s__Pseudoalteromonas sp001401805", "ani": 92.3549, "matched_fragments": 1046, "total_fragments": 1206, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.16", "min_intra_species_ani": "97.37", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_002221525.1", "gtdb_species": "s__Pseudoalteromonas espejiana", "ani": 87.142, "matched_fragments": 1018, "total_fragments": 1206, "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_900239935.1", "gtdb_species": "s__Pseudoalteromonas carrageenovora", "ani": 85.794, "matched_fragments": 945, "total_fragments": 1206, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.00", "min_intra_species_ani": "96.44", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.91", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_018100985.1", "gtdb_species": "s__Pseudoalteromonas sp018100985", "ani": 84.7905, "matched_fragments": 857, "total_fragments": 1206, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.38", "min_intra_species_ani": "98.38", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_011378855.1", "gtdb_species": "s__Pseudoalteromonas sp011378855", "ani": 82.5322, "matched_fragments": 786, "total_fragments": 1206, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.10", "min_intra_species_ani": "97.06", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000238395.3", "gtdb_species": "s__Pseudoalteromonas arctica", "ani": 82.4251, "matched_fragments": 800, "total_fragments": 1206, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.91", "min_intra_species_ani": "96.03", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.80", "num_clustered_genomes": 33, "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 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Enterobacterales", "f__Alteromonadaceae", "g__Pseudoalteromonas", "s__Pseudoalteromonas atlantica" ], "_genome_taxon": [ "Pseudoalteromonas", "sp.", "UBA6508", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Enterobacterales", "f__Alteromonadaceae", "g__Pseudoalteromonas", "s__Pseudoalteromonas atlantica", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Enterobacterales", "Alteromonadaceae", "Pseudoalteromonas", "Pseudoalteromonas", "atlantica" ], "_meo": [ { "id": "MEO_0000041", "label": "marine water" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }