{ "type": "genome", "identifier": "GCF_012986145.1", "organism": "Pseudomonas peli", "title": "Pseudomonas peli", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Technische Universitaet Muenchen", "publication": [ {} ], "properties": { "assembly_accession": "GCF_012986145.1", "bioproject": "PRJNA224116", "biosample": "SAMN14381952", "wgs_master": "JAAQXQ000000000.1", "refseq_category": "na", "taxid": "592361", "species_taxid": "592361", "organism_name": "Pseudomonas peli", "infraspecific_name": "strain=DSM 17833", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/05/07", "asm_name": "ASM1298614v1", "asm_submitter": "Technische Universitaet Muenchen", "gbrs_paired_asm": "GCA_012986145.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/012/986/145/GCF_012986145.1_ASM1298614v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4511138", "genome_size_ungapped": "4511138", "gc_percent": "59.500000", "replicon_count": "0", "scaffold_count": "15", "contig_count": "15", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_012986145.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "4342", "protein_coding_gene_count": "4248", "non_coding_gene_count": "66", "pubmed_id": "32587583" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-05-07", "dateModified": "2020-05-07", "datePublished": "2020-05-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas peli" ], "sample_taxid": [ "592361" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Belgium" ], "sample_host_location_id": [], "data_size": "1.265 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)": "4511138", "Number of Sequences": "15", "Longest Sequences (bp)": "2500221", "N50 (bp)": "2500221", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.7", "Number of CDSs": "4313", "Average Protein Length": "313.9", "Coding Ratio (%)": "90.0", "Number of rRNAs": "3", "Number of tRNAs": "57", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas peli", "strain": "strain=DSM 17833", "accession": "GCA_012986145.1", "taxid": 592361, "species_taxid": 592361, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1493, "total_fragments": 1498, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas peli", "strain": "strain=DSM 17833", "accession": "GCA_900099645.1", "taxid": 592361, "species_taxid": 592361, "relation_to_type": "type", "validated": true, "ani": 99.9932, "matched_fragments": 1483, "total_fragments": 1498, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas guineae", "strain": "strain=LMG 24016", "accession": "GCA_900113745.1", "taxid": 425504, "species_taxid": 425504, "relation_to_type": "type", "validated": true, "ani": 84.5051, "matched_fragments": 1019, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas tumuqii", "strain": "strain=LAMW06", "accession": "GCA_013184545.1", "taxid": 2715755, "species_taxid": 2715755, "relation_to_type": "type", "validated": true, "ani": 82.7032, "matched_fragments": 948, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas borbori", "strain": "strain=DSM 17834", "accession": "GCA_900115555.1", "taxid": 289003, "species_taxid": 289003, "relation_to_type": "type", "validated": true, "ani": 82.6929, "matched_fragments": 908, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas benzenivorans", "strain": "strain=DSM 8628", "accession": "GCA_900100495.1", "taxid": 556533, "species_taxid": 556533, "relation_to_type": "type", "validated": true, "ani": 82.4896, "matched_fragments": 975, "total_fragments": 1498, "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": 82.0297, "matched_fragments": 872, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas guryensis", "strain": "strain=SR9", "accession": "GCA_014164785.1", "taxid": 2759165, "species_taxid": 2759165, "relation_to_type": "type", "validated": true, "ani": 81.9753, "matched_fragments": 839, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas hydrolytica", "strain": "strain=DSWY01", "accession": "GCA_021495345.2", "taxid": 2493633, "species_taxid": 2493633, "relation_to_type": "type", "validated": true, "ani": 81.8086, "matched_fragments": 926, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas ullengensis", "strain": "strain=UL070", "accession": "GCA_014174475.1", "taxid": 2759166, "species_taxid": 2759166, "relation_to_type": "type", "validated": true, "ani": 81.7604, "matched_fragments": 830, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas taeanensis", "strain": "strain=MS-3", "accession": "GCA_000498575.2", "taxid": 574962, "species_taxid": 574962, "relation_to_type": "type", "validated": true, "ani": 81.4637, "matched_fragments": 906, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas toyotomiensis", "strain": "strain=JCM 15604", "accession": "GCA_900115695.1", "taxid": 554344, "species_taxid": 554344, "relation_to_type": "type", "validated": true, "ani": 81.4309, "matched_fragments": 925, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas cavernae", "strain": "strain=K2W31S-8", "accession": "GCA_003595175.1", "taxid": 2320867, "species_taxid": 2320867, "relation_to_type": "type", "validated": true, "ani": 81.2694, "matched_fragments": 784, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas insulae", "strain": "strain=UL073", "accession": "GCA_016901015.1", "taxid": 2809017, "species_taxid": 2809017, "relation_to_type": "type", "validated": true, "ani": 81.0377, "matched_fragments": 762, "total_fragments": 1498, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900099645.1", "gtdb_species": "s__Pseudomonas_E peli", "ani": 99.9932, "matched_fragments": 1483, "total_fragments": 1498, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.85", "min_intra_species_ani": "96.04", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 7, "status": "conclusive" }, { "accession": "GCA_002840155.1", "gtdb_species": "s__Pseudomonas_E sp002840155", "ani": 90.8179, "matched_fragments": 1232, "total_fragments": 1498, "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_900105355.1", "gtdb_species": "s__Pseudomonas_E anguilliseptica", "ani": 89.8343, "matched_fragments": 1171, "total_fragments": 1498, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.12", "min_intra_species_ani": "96.12", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018827205.1", "gtdb_species": "s__Pseudomonas_E sp018827205", "ani": 88.6123, "matched_fragments": 1077, "total_fragments": 1498, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.54", "min_intra_species_ani": "99.51", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_003060885.1", "gtdb_species": "s__Pseudomonas_E sp003060885", "ani": 88.51, "matched_fragments": 1126, "total_fragments": 1498, "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": "GCA_018816095.1", "gtdb_species": "s__Pseudomonas_E sp018816095", "ani": 85.9125, "matched_fragments": 947, "total_fragments": 1498, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.20", "min_intra_species_ani": "96.15", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.82", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_004920405.1", "gtdb_species": "s__Pseudomonas_E leptonychotis", "ani": 85.6038, "matched_fragments": 1097, "total_fragments": 1498, "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": "GCA_001465025.1", "gtdb_species": "s__Pseudomonas_E sp001465025", "ani": 84.5683, "matched_fragments": 959, "total_fragments": 1498, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.96", "min_intra_species_ani": "95.96", "mean_intra_species_af": "0.61", "min_intra_species_af": "0.61", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002354655.1", "gtdb_species": "s__Pseudomonas_E sp002354655", "ani": 83.9565, "matched_fragments": 1010, "total_fragments": 1498, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.84", "min_intra_species_ani": "99.84", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009763245.1", "gtdb_species": "s__Pseudomonas_E sp009763245", "ani": 83.4225, "matched_fragments": 952, "total_fragments": 1498, "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": "GCA_018826895.1", "gtdb_species": "s__Pseudomonas_E sp018826895", "ani": 82.4, "matched_fragments": 786, "total_fragments": 1498, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.86", "min_intra_species_ani": "99.82", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.84", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_014851905.1", "gtdb_species": "s__Pseudomonas_E sp014851905", "ani": 81.546, "matched_fragments": 823, "total_fragments": 1498, "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_005508865.1", "gtdb_species": "s__Pseudomonas_E sp005508865", "ani": 81.3794, "matched_fragments": 837, "total_fragments": 1498, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.0, "cell_length": 0.301, "doubling_h": -0.025, "growth_tmp": 29.0, "optimum_tmp": 33.5, "optimum_ph": 7.0, "genome_size": 4487120.0, "gc_content": 60.938, "coding_genes": 5204.79, "rRNA16S_genes": 5.319, "tRNA_genes": 67.35, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 0.666, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.926, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.073, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Pseudomonas", "peli" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }