{ "type": "genome", "identifier": "GCF_013374995.1", "organism": "Pseudomonas eucalypticola", "title": "Pseudomonas eucalypticola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Fujian Agriculture and Forestry University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013374995.1", "bioproject": "PRJNA224116", "biosample": "SAMN15248734", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2599595", "species_taxid": "2599595", "organism_name": "Pseudomonas eucalypticola", "infraspecific_name": "strain=NP-1", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/06/28", "asm_name": "ASM1337499v1", "asm_submitter": "Fujian Agriculture and Forestry University", "gbrs_paired_asm": "GCA_013374995.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/374/995/GCF_013374995.1_ASM1337499v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6401699", "genome_size_ungapped": "6401699", "gc_percent": "63.000000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013374995.1-RS_2024_04_28", "annotation_date": "2024-04-28", "total_gene_count": "5808", "protein_coding_gene_count": "5615", "non_coding_gene_count": "112", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-06-28", "dateModified": "2020-06-28", "datePublished": "2020-06-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas eucalypticola" ], "sample_taxid": [ "2599595" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Nanping" ], "sample_host_location_id": [], "data_size": "1.772 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": 28.0, "max": 28.0 }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "6401699", "Number of Sequences": "2", "Longest Sequences (bp)": "6372924", "N50 (bp)": "6372924", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.1", "Number of CDSs": "5755", "Average Protein Length": "329.7", "Coding Ratio (%)": "88.9", "Number of rRNAs": "25", "Number of tRNAs": "88", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas eucalypticola", "strain": "strain=NP-1", "accession": "GCA_013374995.1", "taxid": 2599595, "species_taxid": 2599595, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2133, "total_fragments": 2133, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas brassicae", "strain": "strain=MAFF 212427", "accession": "GCA_010671725.1", "taxid": 2708063, "species_taxid": 2708063, "relation_to_type": "type", "validated": true, "ani": 82.7797, "matched_fragments": 843, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas ekonensis", "strain": "strain=COR58", "accession": "GCA_019145435.1", "taxid": 2842353, "species_taxid": 2842353, "relation_to_type": "type", "validated": true, "ani": 82.6952, "matched_fragments": 1096, "total_fragments": 2133, "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": 82.5411, "matched_fragments": 1001, "total_fragments": 2133, "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": 82.4779, "matched_fragments": 976, "total_fragments": 2133, "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": 82.4397, "matched_fragments": 1007, "total_fragments": 2133, "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": 82.3706, "matched_fragments": 998, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas chlororaphis subsp. aurantiaca", "strain": "strain=DSM 19603", "accession": "GCA_003851835.1", "taxid": 86192, "species_taxid": 587753, "relation_to_type": "type", "validated": true, "ani": 82.3678, "matched_fragments": 1159, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas rhizosphaerae", "strain": "strain=DSM 16299", "accession": "GCA_000761155.1", "taxid": 216142, "species_taxid": 216142, "relation_to_type": "type", "validated": true, "ani": 82.3322, "matched_fragments": 909, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas batumici", "strain": "strain=UCM B-321", "accession": "GCA_000820515.1", "taxid": 226910, "species_taxid": 226910, "relation_to_type": "type", "validated": true, "ani": 82.3115, "matched_fragments": 984, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas coleopterorum", "strain": "strain=LMG 28558", "accession": "GCA_900105555.1", "taxid": 1605838, "species_taxid": 1605838, "relation_to_type": "type", "validated": true, "ani": 82.2985, "matched_fragments": 926, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas alkylphenolica", "strain": "strain=KL28", "accession": "GCA_000746525.1", "taxid": 237609, "species_taxid": 237609, "relation_to_type": "type", "validated": true, "ani": 82.2734, "matched_fragments": 927, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas baltica", "strain": "strain=MBT-2", "accession": "GCA_014235765.1", "taxid": 2762576, "species_taxid": 2762576, "relation_to_type": "type", "validated": true, "ani": 82.0328, "matched_fragments": 906, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas kilonensis", "strain": "strain=DSM 13647", "accession": "GCA_001269885.1", "taxid": 132476, "species_taxid": 132476, "relation_to_type": "type", "validated": true, "ani": 81.9821, "matched_fragments": 970, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas zanjanensis", "strain": "strain=SWRI12", "accession": "GCA_014268745.2", "taxid": 2745496, "species_taxid": 2745496, "relation_to_type": "type", "validated": true, "ani": 81.9205, "matched_fragments": 956, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas urethralis", "strain": "strain=BML-PP042", "accession": "GCA_021602465.1", "taxid": 2740517, "species_taxid": 2740517, "relation_to_type": "suspected-type", "validated": true, "ani": 81.8926, "matched_fragments": 989, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sessilinigenes", "strain": "strain=CMR12a", "accession": "GCA_019139855.1", "taxid": 658629, "species_taxid": 658629, "relation_to_type": "type", "validated": true, "ani": 81.8488, "matched_fragments": 1030, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas thivervalensis", "strain": "strain=DSM 13194", "accession": "GCA_001269655.1", "taxid": 86265, "species_taxid": 86265, "relation_to_type": "type", "validated": true, "ani": 81.8472, "matched_fragments": 983, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas urethralis", "strain": "strain=BML-PP042", "accession": "GCA_013373915.1", "taxid": 2740517, "species_taxid": 2740517, "relation_to_type": "suspected-type", "validated": true, "ani": 81.7947, "matched_fragments": 968, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas brassicacearum", "strain": "strain=JCM 11938", "accession": "GCA_012034345.1", "taxid": 930166, "species_taxid": 930166, "relation_to_type": "suspected-type", "validated": true, "ani": 81.7933, "matched_fragments": 984, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas brassicacearum subsp. brassicacearum", "strain": "strain=CCUG 51508", "accession": "GCA_008801605.1", "taxid": 86264, "species_taxid": 930166, "relation_to_type": "type", "validated": true, "ani": 81.7876, "matched_fragments": 993, "total_fragments": 2133, "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": 81.7736, "matched_fragments": 944, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas laurentiana", "strain": "strain=JCM 32154", "accession": "GCA_014648275.1", "taxid": 2364649, "species_taxid": 2364649, "relation_to_type": "type", "validated": true, "ani": 81.1314, "matched_fragments": 820, "total_fragments": 2133, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013374995.1", "gtdb_species": "s__Pseudomonas_E eucalypticola", "ani": 100.0, "matched_fragments": 2133, "total_fragments": 2133, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.03", "min_intra_species_ani": "99.03", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_000497835.1", "gtdb_species": "s__Pseudomonas_E sp000497835", "ani": 86.9108, "matched_fragments": 1614, "total_fragments": 2133, "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_000263855.1", "gtdb_species": "s__Pseudomonas_E sp000263855", "ani": 86.6473, "matched_fragments": 1503, "total_fragments": 2133, "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_900497695.1", "gtdb_species": "s__Pseudomonas_E wadenswilerensis", "ani": 82.6452, "matched_fragments": 1020, "total_fragments": 2133, "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": "-" }, { "accession": "GCF_000259195.1", "gtdb_species": "s__Pseudomonas_E donghuensis", "ani": 82.603, "matched_fragments": 992, "total_fragments": 2133, "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": 82.5787, "matched_fragments": 1019, "total_fragments": 2133, "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_003105155.1", "gtdb_species": "s__Pseudomonas_E sp003105155", "ani": 82.4466, "matched_fragments": 915, "total_fragments": 2133, "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_000761155.1", "gtdb_species": "s__Pseudomonas_E rhizosphaerae", "ani": 82.3577, "matched_fragments": 905, "total_fragments": 2133, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.13", "min_intra_species_ani": "98.13", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_011355085.1", "gtdb_species": "s__Pseudomonas_E sp011355085", "ani": 82.2852, "matched_fragments": 921, "total_fragments": 2133, "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_900105555.1", "gtdb_species": "s__Pseudomonas_E coleopterorum", "ani": 82.2594, "matched_fragments": 928, "total_fragments": 2133, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.66", "min_intra_species_ani": "96.53", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_000746525.1", "gtdb_species": "s__Pseudomonas_E alkylphenolica", "ani": 82.2532, "matched_fragments": 924, "total_fragments": 2133, "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_900187455.1", "gtdb_species": "s__Pseudomonas_E sp900187455", "ani": 82.1998, "matched_fragments": 1050, "total_fragments": 2133, "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_001269885.1", "gtdb_species": "s__Pseudomonas_E kilonensis", "ani": 81.9666, "matched_fragments": 972, "total_fragments": 2133, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.12", "min_intra_species_ani": "95.91", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 15, "status": "-" }, { "accession": "GCA_002379585.1", "gtdb_species": "s__Pseudomonas_E sp002379585", "ani": 81.9111, "matched_fragments": 919, "total_fragments": 2133, "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_001269655.1", "gtdb_species": "s__Pseudomonas_E thivervalensis", "ani": 81.8752, "matched_fragments": 976, "total_fragments": 2133, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.35", "min_intra_species_ani": "98.81", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 6, "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", "eucalypticola" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }