{ "type": "genome", "identifier": "GCF_014863585.1", "organism": "Pseudomonas gozinkensis", "title": "Pseudomonas gozinkensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Juntendo University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014863585.1", "bioproject": "PRJNA224116", "biosample": "SAMN16250066", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2774461", "species_taxid": "2774461", "organism_name": "Pseudomonas gozinkensis", "infraspecific_name": "strain=IzPS32d", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/08", "asm_name": "ASM1486358v1", "asm_submitter": "Juntendo University", "gbrs_paired_asm": "GCA_014863585.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/863/585/GCF_014863585.1_ASM1486358v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6563527", "genome_size_ungapped": "6563527", "gc_percent": "60.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014863585.1-RS_2024_04_20", "annotation_date": "2024-04-20", "total_gene_count": "5901", "protein_coding_gene_count": "5762", "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 gozinkensis" ], "sample_taxid": [ "2774461" ], "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": "1.828 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)": "6563527", "Number of Sequences": "1", "Longest Sequences (bp)": "6563527", "N50 (bp)": "6563527", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.3", "Number of CDSs": "5794", "Average Protein Length": "335.5", "Coding Ratio (%)": "88.8", "Number of rRNAs": "19", "Number of tRNAs": "75", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas pharyngis", "strain": "strain=BML-PP036", "accession": "GCA_021602345.1", "taxid": 2892333, "species_taxid": 2892333, "relation_to_type": "type", "validated": true, "ani": 93.8184, "matched_fragments": 1835, "total_fragments": 2187, "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": 93.5671, "matched_fragments": 1785, "total_fragments": 2187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas allokribbensis", "strain": "strain=IzPS23", "accession": "GCA_014863605.1", "taxid": 2774460, "species_taxid": 2774460, "relation_to_type": "type", "validated": true, "ani": 91.9829, "matched_fragments": 1854, "total_fragments": 2187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas kribbensis", "strain": "strain=46-2", "accession": "GCA_003352185.1", "taxid": 1628086, "species_taxid": 1628086, "relation_to_type": "type", "validated": true, "ani": 91.8141, "matched_fragments": 1818, "total_fragments": 2187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas bananamidigenes", "strain": "strain=BW11P2", "accession": "GCA_001679645.1", "taxid": 2843610, "species_taxid": 2843610, "relation_to_type": "type", "validated": true, "ani": 90.3808, "matched_fragments": 1680, "total_fragments": 2187, "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": 88.8228, "matched_fragments": 1714, "total_fragments": 2187, "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": 88.7872, "matched_fragments": 1723, "total_fragments": 2187, "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": 88.3854, "matched_fragments": 1735, "total_fragments": 2187, "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": 88.1363, "matched_fragments": 1741, "total_fragments": 2187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas germanica", "strain": "strain=FIT28", "accession": "GCA_019614655.1", "taxid": 2815720, "species_taxid": 2815720, "relation_to_type": "type", "validated": true, "ani": 88.1065, "matched_fragments": 1737, "total_fragments": 2187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas crudilactis", "strain": "strain=UCMA 17988", "accession": "GCA_013433315.1", "taxid": 2697028, "species_taxid": 2697028, "relation_to_type": "type", "validated": true, "ani": 88.0731, "matched_fragments": 1740, "total_fragments": 2187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas atacamensis", "strain": "strain=M7D1", "accession": "GCA_004801935.1", "taxid": 2565368, "species_taxid": 2565368, "relation_to_type": "type", "validated": true, "ani": 87.6573, "matched_fragments": 1575, "total_fragments": 2187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas moorei", "strain": "strain=CCUG 53114", "accession": "GCA_008801475.1", "taxid": 395599, "species_taxid": 395599, "relation_to_type": "type", "validated": true, "ani": 85.974, "matched_fragments": 1425, "total_fragments": 2187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas rhizophila", "strain": "strain=S211", "accession": "GCA_003033885.1", "taxid": 2045200, "species_taxid": 2045200, "relation_to_type": "type", "validated": true, "ani": 84.2551, "matched_fragments": 1281, "total_fragments": 2187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas pergaminensis", "strain": "strain=1008", "accession": "GCA_024112395.1", "taxid": 2853159, "species_taxid": 2853159, "relation_to_type": "type", "validated": true, "ani": 83.7621, "matched_fragments": 1294, "total_fragments": 2187, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014863585.1", "gtdb_species": "s__Pseudomonas_E gozinkensis", "ani": 100.0, "matched_fragments": 2183, "total_fragments": 2187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "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": "conclusive" }, { "accession": "GCF_004006335.1", "gtdb_species": "s__Pseudomonas_E sp002112885", "ani": 94.7503, "matched_fragments": 1910, "total_fragments": 2187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.01", "min_intra_species_ani": "95.48", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 14, "status": "-" }, { "accession": "GCF_003352875.1", "gtdb_species": "s__Pseudomonas_E fluorescens_BF", "ani": 94.2702, "matched_fragments": 1901, "total_fragments": 2187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "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_010448615.1", "gtdb_species": "s__Pseudomonas_E sp001655595", "ani": 94.0342, "matched_fragments": 1885, "total_fragments": 2187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.61", "min_intra_species_ani": "96.24", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCF_001594225.2", "gtdb_species": "s__Pseudomonas_E glycinae", "ani": 93.8096, "matched_fragments": 1834, "total_fragments": 2187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.56", "min_intra_species_ani": "95.98", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_002113125.1", "gtdb_species": "s__Pseudomonas_E sp002113125", "ani": 93.7473, "matched_fragments": 1831, "total_fragments": 2187, "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": 93.4699, "matched_fragments": 1797, "total_fragments": 2187, "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_014863605.1", "gtdb_species": "s__Pseudomonas_E allokribbensis", "ani": 91.9894, "matched_fragments": 1854, "total_fragments": 2187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.79", "min_intra_species_ani": "97.76", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.92", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_003352185.1", "gtdb_species": "s__Pseudomonas_E kribbensis", "ani": 91.8123, "matched_fragments": 1817, "total_fragments": 2187, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.248, "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", "gozinkensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }