{ "type": "genome", "identifier": "GCF_014863605.1", "organism": "Pseudomonas allokribbensis", "title": "Pseudomonas allokribbensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Juntendo University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014863605.1", "bioproject": "PRJNA224116", "biosample": "SAMN16250065", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2774460", "species_taxid": "2774460", "organism_name": "Pseudomonas allokribbensis", "infraspecific_name": "strain=IzPS23", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/08", "asm_name": "ASM1486360v1", "asm_submitter": "Juntendo University", "gbrs_paired_asm": "GCA_014863605.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/863/605/GCF_014863605.1_ASM1486360v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6565027", "genome_size_ungapped": "6565027", "gc_percent": "60.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014863605.1-RS_2024_04_20", "annotation_date": "2024-04-20", "total_gene_count": "6071", "protein_coding_gene_count": "5927", "non_coding_gene_count": "96", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-10-08", "dateModified": "2020-10-08", "datePublished": "2020-10-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas allokribbensis" ], "sample_taxid": [ "2774460" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan: Izu Oshima" ], "sample_host_location_id": [], "data_size": "1.829 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)": "6565027", "Number of Sequences": "1", "Longest Sequences (bp)": "6565027", "N50 (bp)": "6565027", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.3", "Number of CDSs": "5970", "Average Protein Length": "328.6", "Coding Ratio (%)": "89.6", "Number of rRNAs": "19", "Number of tRNAs": "76", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas allokribbensis", "strain": "strain=IzPS23", "accession": "GCA_014863605.1", "taxid": 2774460, "species_taxid": 2774460, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2184, "total_fragments": 2188, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas kribbensis", "strain": "strain=46-2", "accession": "GCA_003352185.1", "taxid": 1628086, "species_taxid": 1628086, "relation_to_type": "type", "validated": true, "ani": 93.4125, "matched_fragments": 1900, "total_fragments": 2188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas pharyngis", "strain": "strain=BML-PP036", "accession": "GCA_021602345.1", "taxid": 2892333, "species_taxid": 2892333, "relation_to_type": "type", "validated": true, "ani": 91.7248, "matched_fragments": 1773, "total_fragments": 2188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sputi", "strain": "strain=BML-PP014", "accession": "GCA_021603585.1", "taxid": 2892325, "species_taxid": 2892325, "relation_to_type": "type", "validated": true, "ani": 91.5474, "matched_fragments": 1705, "total_fragments": 2188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas koreensis", "strain": "strain=CCUG 51519", "accession": "GCA_008801535.1", "taxid": 198620, "species_taxid": 198620, "relation_to_type": "suspected-type", "validated": true, "ani": 88.9112, "matched_fragments": 1697, "total_fragments": 2188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas koreensis", "strain": "strain=DSM 16610", "accession": "GCA_012986595.1", "taxid": 198620, "species_taxid": 198620, "relation_to_type": "suspected-type", "validated": true, "ani": 88.8752, "matched_fragments": 1702, "total_fragments": 2188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas koreensis", "strain": "strain=JCM 14769", "accession": "GCA_014646955.1", "taxid": 198620, "species_taxid": 198620, "relation_to_type": "suspected-type", "validated": true, "ani": 88.8665, "matched_fragments": 1706, "total_fragments": 2188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas monsensis", "strain": "strain=PGSB 8459", "accession": "GCA_014268495.2", "taxid": 2745509, "species_taxid": 2745509, "relation_to_type": "type", "validated": true, "ani": 88.4501, "matched_fragments": 1681, "total_fragments": 2188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas zeae", "strain": "strain=OE 48.2", "accession": "GCA_014268485.2", "taxid": 2745510, "species_taxid": 2745510, "relation_to_type": "type", "validated": true, "ani": 88.3261, "matched_fragments": 1693, "total_fragments": 2188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas neuropathica", "strain": "strain=P155", "accession": "GCA_015461835.1", "taxid": 2730425, "species_taxid": 2730425, "relation_to_type": "type", "validated": true, "ani": 88.1011, "matched_fragments": 1698, "total_fragments": 2188, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas germanica", "strain": "strain=FIT28", "accession": "GCA_019614655.1", 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"gtdb_species": "s__Pseudomonas_E kribbensis", "ani": 93.4126, "matched_fragments": 1900, "total_fragments": 2188, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.22", "min_intra_species_ani": "95.68", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.89", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_012974785.1", "gtdb_species": "s__Pseudomonas_E fluorescens_BT", "ani": 92.6588, "matched_fragments": 1854, "total_fragments": 2188, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.87", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004006335.1", 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"gtdb_species": "s__Pseudomonas_E sp002113125", "ani": 91.7787, "matched_fragments": 1768, "total_fragments": 2188, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "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_002113045.1", "gtdb_species": "s__Pseudomonas_E sp002113045", "ani": 91.4865, "matched_fragments": 1732, "total_fragments": 2188, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.93", "min_intra_species_ani": "98.93", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004683905.1", 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"cell_length": 0.186, "doubling_h": -0.025, "growth_tmp": 28.767, "optimum_tmp": 27.972, "optimum_ph": 7.258, "genome_size": 5663774.24, "gc_content": 60.938, "coding_genes": 5204.79, "rRNA16S_genes": 5.319, "tRNA_genes": 67.35, "gram_stain": 0.0, "sporulation": 0.013, "motility": 0.975, "range_salinity": 0.666, "facultative_respiration": 0.021, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.978, "mesophilic_range_tmp": 0.926, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.073, "bacillus_cell_shape": 0.988, "coccus_cell_shape": 0.011, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Pseudomonas", "allokribbensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }