{ "type": "genome", "identifier": "GCF_900497695.1", "organism": "Pseudomonas wadenswilerensis", "title": "Pseudomonas wadenswilerensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "JLU", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900497695.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4796555", "wgs_master": "UIDD00000000.1", "refseq_category": "reference genome", "taxid": "1785161", "species_taxid": "1785161", "organism_name": "Pseudomonas wadenswilerensis", "infraspecific_name": "strain=CCOS 864", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/01", "asm_name": "PWADCCOS864", "asm_submitter": "JLU", "gbrs_paired_asm": "GCA_900497695.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/497/695/GCF_900497695.1_PWADCCOS864", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5966738", "genome_size_ungapped": "5966738", "gc_percent": "62.500000", "replicon_count": "0", "scaffold_count": "18", "contig_count": "18", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900497695.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "5572", "protein_coding_gene_count": "5408", "non_coding_gene_count": "89", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-08-01", "dateModified": "2018-08-01", "datePublished": "2018-08-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas wadenswilerensis" ], "sample_taxid": [ "1785161" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.651 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)": "5966738", "Number of Sequences": "18", "Longest Sequences (bp)": "944637", "N50 (bp)": "532738", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.4", "Number of CDSs": "5473", "Average Protein Length": "326.5", "Coding Ratio (%)": "89.8", "Number of rRNAs": "8", "Number of tRNAs": "67", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas alkylphenolica", "strain": "strain=KL28", "accession": "GCA_000746525.1", "taxid": 237609, "species_taxid": 237609, "relation_to_type": "type", "validated": true, "ani": 87.4063, "matched_fragments": 1398, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas vranovensis", "strain": "strain=DSM 16006", "accession": "GCA_000425805.1", "taxid": 321661, "species_taxid": 321661, "relation_to_type": "type", "validated": true, "ani": 86.9254, "matched_fragments": 1382, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas brassicae", "strain": "strain=MAFF 212427", "accession": "GCA_010671725.1", "taxid": 2708063, "species_taxid": 2708063, "relation_to_type": "type", "validated": true, "ani": 85.7461, "matched_fragments": 1060, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas japonica", "strain": "strain=NBRC 103040", "accession": "GCA_000730585.1", "taxid": 256466, "species_taxid": 256466, "relation_to_type": "type", "validated": true, "ani": 85.4404, "matched_fragments": 1280, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas japonica", "strain": "strain=DSM 22348", "accession": "GCA_900188455.1", "taxid": 256466, "species_taxid": 256466, "relation_to_type": "type", "validated": true, "ani": 85.3363, "matched_fragments": 1297, "total_fragments": 1982, "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": 85.0751, "matched_fragments": 1265, "total_fragments": 1982, "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": 85.008, "matched_fragments": 1209, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas arcuscaelestis", "strain": "strain=P66", "accession": "GCA_016881005.1", "taxid": 2710591, "species_taxid": 2710591, "relation_to_type": "type", "validated": true, "ani": 84.8715, "matched_fragments": 1322, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas bharatica", "strain": "strain=CSV86", "accession": "GCA_000319305.2", "taxid": 2692112, "species_taxid": 2692112, "relation_to_type": "type", "validated": true, "ani": 84.7705, "matched_fragments": 1246, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas capeferrum", "strain": "strain=WCS358", "accession": "GCA_022548835.1", "taxid": 1495066, "species_taxid": 1495066, "relation_to_type": "type", "validated": true, "ani": 84.1135, "matched_fragments": 1132, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas putida", "strain": "strain=ATCC 12633", "accession": "GCA_024508115.1", "taxid": 303, "species_taxid": 303, "relation_to_type": "suspected-type", "validated": true, "ani": 83.9803, "matched_fragments": 1248, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas defluvii", "strain": "strain=WCHP16", "accession": "GCA_001695625.1", "taxid": 1876757, "species_taxid": 1876757, "relation_to_type": "type", "validated": true, "ani": 83.8653, "matched_fragments": 996, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas eucalypticola", "strain": "strain=NP-1", "accession": "GCA_013374995.1", "taxid": 2599595, "species_taxid": 2599595, "relation_to_type": "type", "validated": true, "ani": 82.7268, "matched_fragments": 1014, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas umsongensis", "strain": "strain=DSM 16611", "accession": "GCA_002236105.1", "taxid": 198618, "species_taxid": 198618, "relation_to_type": "type", "validated": true, "ani": 82.1404, "matched_fragments": 1073, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas izuensis", "strain": "strain=IzPS43_3003", "accession": "GCA_009861505.1", "taxid": 2684212, "species_taxid": 2684212, "relation_to_type": "type", "validated": true, "ani": 82.0719, "matched_fragments": 1068, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas meliae", "strain": "strain=ICMP6289", "accession": "GCA_001400515.1", "taxid": 86176, "species_taxid": 86176, "relation_to_type": "suspected-type", "validated": true, "ani": 80.4332, "matched_fragments": 728, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas amygdali", "strain": "strain=ICMP 3918", "accession": "GCA_002699855.1", "taxid": 47877, "species_taxid": 47877, "relation_to_type": "suspected-type", "validated": true, "ani": 80.4263, "matched_fragments": 761, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas meliae", "strain": "strain=CFBP 3225", "accession": "GCA_000935675.1", "taxid": 86176, "species_taxid": 86176, "relation_to_type": "suspected-type", "validated": true, "ani": 80.4053, "matched_fragments": 749, "total_fragments": 1982, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900497695.1", "gtdb_species": "s__Pseudomonas_E wadenswilerensis", "ani": 100.0, "matched_fragments": 1982, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.26", "min_intra_species_ani": "99.26", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_000259195.1", "gtdb_species": "s__Pseudomonas_E donghuensis", "ani": 93.3532, "matched_fragments": 1634, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.33", "min_intra_species_ani": "99.30", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000800615.1", "gtdb_species": "s__Pseudomonas_E putida_F", "ani": 93.0884, "matched_fragments": 1703, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.83", "min_intra_species_ani": "99.76", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.96", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_018417635.1", "gtdb_species": "s__Pseudomonas_E sp900101695", "ani": 92.5125, "matched_fragments": 1701, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.49", "min_intra_species_ani": "97.27", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_004214895.1", "gtdb_species": "s__Pseudomonas_E sp004214895", "ani": 90.8877, "matched_fragments": 1597, "total_fragments": 1982, "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_000746525.1", "gtdb_species": "s__Pseudomonas_E alkylphenolica", "ani": 87.3873, "matched_fragments": 1400, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.61", "min_intra_species_ani": "96.52", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.83", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_004803755.1", "gtdb_species": "s__Pseudomonas_E sp004803755", "ani": 84.8241, "matched_fragments": 1308, "total_fragments": 1982, "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_004348895.1", "gtdb_species": "s__Pseudomonas_E vancouverensis", "ani": 82.4372, "matched_fragments": 1089, "total_fragments": 1982, "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": 3, "status": "-" }, { "accession": "GCF_902497995.1", "gtdb_species": "s__Pseudomonas_E fluorescens_BK", "ani": 82.0909, "matched_fragments": 1060, "total_fragments": 1982, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.06", "min_intra_species_ani": "99.06", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "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", "wadenswilerensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }