{ "type": "genome", "identifier": "GCF_945859885.1", "organism": "Pseudoalteromonas haloplanktis", "title": "Pseudoalteromonas haloplanktis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institut Pasteur", "publication": [ {} ], "properties": { "assembly_accession": "GCF_945859885.1", "bioproject": "PRJNA224116", "biosample": "SAMEA110386555", "wgs_master": "CAMAPB000000000.1", "refseq_category": "reference genome", "taxid": "228", "species_taxid": "228", "organism_name": "Pseudoalteromonas haloplanktis", "infraspecific_name": "na", "isolate": "CIP103197", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/09/13", "asm_name": "CIP103197", "asm_submitter": "Institut Pasteur", "gbrs_paired_asm": "GCA_945859885.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/945/859/885/GCF_945859885.1_CIP103197", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3972527", "genome_size_ungapped": "3972407", "gc_percent": "40.000000", "replicon_count": "0", "scaffold_count": "228", "contig_count": "228", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_945859885.1-RS_2024_10_11", "annotation_date": "2024-10-11", "total_gene_count": "3765", "protein_coding_gene_count": "3518", "non_coding_gene_count": "99", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-09-13", "dateModified": "2022-09-13", "datePublished": "2022-09-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoalteromonas haloplanktis" ], "sample_taxid": [ "228" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.134 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)": "3972527", "Number of Sequences": "228", "Longest Sequences (bp)": "198972", "N50 (bp)": "59168", "Gap Ratio (%)": "0.003021", "GCcontent (%)": "40.2", "Number of CDSs": "3622", "Average Protein Length": "312.8", "Coding Ratio (%)": "85.6", "Number of rRNAs": "4", "Number of tRNAs": "85", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "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": 96.5214, "matched_fragments": 1079, "total_fragments": 1218, "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": 96.5181, "matched_fragments": 1066, "total_fragments": 1218, "ani_threshold": 95, "status": "inconclusive" }, { "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": 96.5136, "matched_fragments": 1067, "total_fragments": 1218, "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": 96.5029, "matched_fragments": 1091, "total_fragments": 1218, "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": 92.1394, "matched_fragments": 1028, "total_fragments": 1218, "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": 81.8439, "matched_fragments": 765, "total_fragments": 1218, "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": 81.1163, "matched_fragments": 619, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio gigantis", "strain": "strain=LMG 22741", "accession": "GCA_024347515.1", "taxid": 296199, "species_taxid": 296199, "relation_to_type": "type", "validated": true, "ani": 77.347, "matched_fragments": 54, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Vibrio algicola", "strain": "strain=SM1977", "accession": "GCA_009601765.2", "taxid": 2662262, "species_taxid": 2662262, "relation_to_type": "type", "validated": true, "ani": 77.2223, "matched_fragments": 55, "total_fragments": 1218, "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": 76.7204, "matched_fragments": 68, "total_fragments": 1218, "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": 96.5029, "matched_fragments": 1091, "total_fragments": 1218, "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": "GCF_000238275.3", "gtdb_species": "s__Pseudoalteromonas undina", "ani": 92.1484, "matched_fragments": 1027, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.26", "min_intra_species_ani": "96.09", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.86", "num_clustered_genomes": 14, "status": "-" }, { "accession": "GCA_018402495.1", "gtdb_species": "s__Pseudoalteromonas sp018402495", "ani": 91.8507, "matched_fragments": 1000, "total_fragments": 1218, "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_004328665.1", "gtdb_species": "s__Pseudoalteromonas sp001974855", "ani": 91.0352, "matched_fragments": 1011, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.16", "min_intra_species_ani": "95.35", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.83", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_002221505.1", "gtdb_species": "s__Pseudoalteromonas nigrifaciens", "ani": 82.3958, "matched_fragments": 756, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 96.0242, "mean_intra_species_ani": "98.65", "min_intra_species_ani": "98.00", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.81", "num_clustered_genomes": 15, "status": "-" }, { "accession": "GCA_000814675.1", "gtdb_species": "s__Pseudoalteromonas distincta", "ani": 81.8322, "matched_fragments": 766, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudoalteromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.26", "min_intra_species_ani": "95.34", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.77", "num_clustered_genomes": 38, "status": "-" }, { "accession": "GCF_002221525.1", "gtdb_species": "s__Pseudoalteromonas espejiana", "ani": 81.772, "matched_fragments": 718, "total_fragments": 1218, "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_018100985.1", "gtdb_species": "s__Pseudoalteromonas sp018100985", "ani": 81.6206, "matched_fragments": 704, "total_fragments": 1218, "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": 81.5036, "matched_fragments": 734, "total_fragments": 1218, "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_001661495.1", "gtdb_species": "s__Pseudoalteromonas prydzensis", "ani": 80.8289, "matched_fragments": 577, "total_fragments": 1218, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.097, "cell_length": 0.255, "doubling_h": 0.181, "growth_tmp": 20.2, "optimum_tmp": 13.75, "optimum_ph": 7.588, "genome_size": 4152878.0, "gc_content": 39.829, "coding_genes": 3421.0, "rRNA16S_genes": 9.0, "tRNA_genes": 106.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 1.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "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", "haloplanktis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }