{ "type": "genome", "identifier": "GCF_001870485.1", "organism": "Oceanisphaera psychrotolerans", "title": "Oceanisphaera psychrotolerans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institute of Agricultural Resources and Regional Planning", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001870485.1", "bioproject": "PRJNA224116", "biosample": "SAMN05573647", "wgs_master": "MDKE00000000.1", "refseq_category": "reference genome", "taxid": "1414654", "species_taxid": "1414654", "organism_name": "Oceanisphaera psychrotolerans", "infraspecific_name": "strain=LAM-WHM-ZC", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/11/07", "asm_name": "ASM187048v1", "asm_submitter": "Institute of Agricultural Resources and Regional Planning", "gbrs_paired_asm": "GCA_001870485.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/870/485/GCF_001870485.1_ASM187048v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3819538", "genome_size_ungapped": "3819538", "gc_percent": "58.500000", "replicon_count": "0", "scaffold_count": "70", "contig_count": "70", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001870485.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "3647", "protein_coding_gene_count": "3373", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-11-07", "dateModified": "2016-11-07", "datePublished": "2016-11-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Oceanisphaera psychrotolerans" ], "sample_taxid": [ "1414654" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Yantai City, Shandong Province" ], "sample_host_location_id": [], "data_size": "1.083 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)": "3819538", "Number of Sequences": "70", "Longest Sequences (bp)": "393186", "N50 (bp)": "106599", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.7", "Number of CDSs": "3683", "Average Protein Length": "304.2", "Coding Ratio (%)": "88.0", "Number of rRNAs": "1", "Number of tRNAs": "47", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Oceanisphaera psychrotolerans", "strain": "strain=LAM-WHM-ZC", "accession": "GCA_001870485.1", 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"type", "validated": true, "ani": 86.8698, "matched_fragments": 827, "total_fragments": 1237, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zobellella denitrificans", "strain": "strain=ZD1", "accession": "GCA_002237365.1", "taxid": 347534, "species_taxid": 347534, "relation_to_type": "type", "validated": true, "ani": 83.2151, "matched_fragments": 767, "total_fragments": 1237, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zobellella endophytica", "strain": "strain=59N8", "accession": "GCA_003012775.1", "taxid": 2116700, "species_taxid": 2116700, "relation_to_type": "type", "validated": true, "ani": 83.0983, "matched_fragments": 817, "total_fragments": 1237, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanimonas marisflavi", "strain": "strain=102-Na3", "accession": "GCA_003049725.1", "taxid": 2059724, "species_taxid": 2059724, "relation_to_type": "type", "validated": true, "ani": 81.7137, "matched_fragments": 734, "total_fragments": 1237, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanisphaera marina", "strain": "strain=CGMCC 1.15923", "accession": "GCA_014643915.1", "taxid": 2017550, "species_taxid": 2017550, "relation_to_type": "type", "validated": true, "ani": 80.9284, "matched_fragments": 645, "total_fragments": 1237, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lalucatii", "strain": "strain=R1b54", "accession": "GCA_018398425.1", "taxid": 1424203, "species_taxid": 1424203, "relation_to_type": "type", "validated": true, "ani": 76.5855, "matched_fragments": 184, "total_fragments": 1237, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas aromaticivorans", "strain": "strain=MAP12", "accession": "GCA_019097855.1", "taxid": 2849492, "species_taxid": 2849492, "relation_to_type": "type", "validated": true, "ani": 76.5328, "matched_fragments": 134, "total_fragments": 1237, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas aeruginosa", "strain": "strain=DSM 50071", "accession": "GCA_024169805.1", "taxid": 287, "species_taxid": 287, "relation_to_type": "type", "validated": true, "ani": 76.378, "matched_fragments": 139, "total_fragments": 1237, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas faucium", "strain": "strain=BML-PP048", "accession": "GCA_021602585.1", "taxid": 2740518, "species_taxid": 2740518, "relation_to_type": "type", "validated": true, "ani": 76.2797, "matched_fragments": 153, "total_fragments": 1237, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas faucium", "strain": "strain=BML-PP048", "accession": "GCA_013373935.1", "taxid": 2740518, "species_taxid": 2740518, "relation_to_type": "type", "validated": true, "ani": 76.2736, "matched_fragments": 149, "total_fragments": 1237, "ani_threshold": 95, "status": "below_threshold" } ], 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"min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003012775.1", "gtdb_species": "s__Zobellella_C endophytica", "ani": 83.0918, "matched_fragments": 817, "total_fragments": 1237, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Zobellella_C", "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_003049725.1", "gtdb_species": "s__Oceanimonas marisflavi", "ani": 81.7137, "matched_fragments": 734, "total_fragments": 1237, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanimonas", "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": -0.055, "cell_length": -0.082, "doubling_h": null, "growth_tmp": 29.666, "optimum_tmp": 30.0, "optimum_ph": 7.333, "genome_size": 3525114.5, "gc_content": 53.683, "coding_genes": 2894.0, "rRNA16S_genes": 8.0, "tRNA_genes": 91.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.666, "range_salinity": null, "facultative_respiration": 0.25, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.75, "mesophilic_range_tmp": 0.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 1.0, "bacillus_cell_shape": 0.5, "coccus_cell_shape": 0.5, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Oceanisphaera", "psychrotolerans" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }