{ "type": "genome", "identifier": "GCF_000813265.1", "organism": "Ectopseudomonas mendocina NBRC 14162", "title": "Ectopseudomonas mendocina NBRC 14162", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000813265.1", "bioproject": "PRJNA224116", "biosample": "SAMD00023447", "wgs_master": "BBQC00000000.1", "refseq_category": "na", "taxid": "1215108", "species_taxid": "300", "organism_name": "Ectopseudomonas mendocina NBRC 14162", "infraspecific_name": "strain=NBRC 14162", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/12/15", "asm_name": "ASM81326v1", "asm_submitter": "National Institute of Technology and Evaluation", "gbrs_paired_asm": "GCA_000813265.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/813/265/GCF_000813265.1_ASM81326v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5124692", "genome_size_ungapped": "5124692", "gc_percent": "63.000000", "replicon_count": "0", "scaffold_count": "22", "contig_count": "22", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000813265.1-RS_2024_10_21", "annotation_date": "2024-10-21", "total_gene_count": "4811", "protein_coding_gene_count": "4710", "non_coding_gene_count": "68", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-12-15", "dateModified": "2014-12-15", "datePublished": "2014-12-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Ectopseudomonas mendocina NBRC 14162" ], "sample_taxid": [ "1215108" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "NA" ], "sample_host_location_id": [], "data_size": "1.422 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)": "5124692", "Number of Sequences": "22", "Longest Sequences (bp)": "1022592", "N50 (bp)": "428844", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.8", "Number of CDSs": "4753", "Average Protein Length": "322.8", "Coding Ratio (%)": "89.8", "Number of rRNAs": "4", "Number of tRNAs": "64", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas mendocina", "strain": "strain=NBRC 14162", "accession": "GCA_000813265.1", "taxid": 300, "species_taxid": 300, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 1695, "total_fragments": 1696, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas mendocina", "strain": "strain=NCTC10897", "accession": "GCA_900636545.1", "taxid": 300, "species_taxid": 300, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9956, "matched_fragments": 1695, "total_fragments": 1696, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas yangonensis", "strain": "strain=MY50", "accession": "GCA_009932725.1", "taxid": 2579922, "species_taxid": 2579922, "relation_to_type": "type", "validated": true, "ani": 90.5973, "matched_fragments": 1355, "total_fragments": 1696, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas guguanensis", "strain": "strain=JCM 18416", "accession": "GCA_900104265.1", "taxid": 1198456, "species_taxid": 1198456, "relation_to_type": "type", "validated": true, "ani": 89.8264, "matched_fragments": 1352, "total_fragments": 1696, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas chengduensis", "strain": "strain=MBR", "accession": "GCA_017905455.1", "taxid": 489632, "species_taxid": 489632, "relation_to_type": "type", "validated": true, "ani": 89.147, "matched_fragments": 1363, "total_fragments": 1696, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas sihuiensis", "strain": "strain=KCTC 32246", "accession": "GCA_900106015.1", "taxid": 1274359, "species_taxid": 1274359, "relation_to_type": "type", "validated": true, "ani": 89.1324, "matched_fragments": 1363, "total_fragments": 1696, "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": 88.9193, "matched_fragments": 1379, "total_fragments": 1696, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas oleovorans subsp. oleovorans", "strain": "strain=NBRC 13583", "accession": "GCA_002091815.1", "taxid": 1218129, "species_taxid": 301, "relation_to_type": "type", "validated": true, "ani": 88.8987, "matched_fragments": 1148, "total_fragments": 1696, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas toyotomiensis", "strain": "strain=DSM 26169", "accession": "GCA_002741095.1", "taxid": 554344, "species_taxid": 554344, "relation_to_type": "type", "validated": true, "ani": 88.8937, "matched_fragments": 1383, "total_fragments": 1696, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas alcaliphila", "strain": "strain=NBRC 102411", "accession": "GCA_002091495.1", "taxid": 101564, "species_taxid": 101564, "relation_to_type": "type", "validated": true, "ani": 88.8274, "matched_fragments": 1395, "total_fragments": 1696, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas alcaliphila", "strain": "strain=JCM 10630", "accession": "GCA_900101755.1", "taxid": 101564, "species_taxid": 101564, "relation_to_type": "type", "validated": true, "ani": 88.806, "matched_fragments": 1401, "total_fragments": 1696, "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": 88.0823, "matched_fragments": 1320, "total_fragments": 1696, "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": 83.0852, "matched_fragments": 942, "total_fragments": 1696, "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": 82.0171, "matched_fragments": 878, "total_fragments": 1696, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900636545.1", "gtdb_species": "s__Pseudomonas_E mendocina", "ani": 99.9956, "matched_fragments": 1695, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.91", "min_intra_species_ani": "97.19", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 14, "status": "conclusive" }, { "accession": "GCF_016008875.1", "gtdb_species": "s__Pseudomonas_E sp002439135", "ani": 91.1985, "matched_fragments": 1384, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.91", "min_intra_species_ani": "96.75", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.85", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000418555.1", "gtdb_species": "s__Pseudomonas_E sp000418555", "ani": 90.6875, "matched_fragments": 1406, "total_fragments": 1696, "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_009932725.1", "gtdb_species": "s__Pseudomonas_E sp009932725", "ani": 90.5973, "matched_fragments": 1355, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.40", "min_intra_species_ani": "98.35", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_007049795.1", "gtdb_species": "s__Pseudomonas_E mendocina_D", "ani": 89.9976, "matched_fragments": 1283, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.17", "min_intra_species_ani": "96.47", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.84", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_900104265.1", "gtdb_species": "s__Pseudomonas_E guguanensis", "ani": 89.8153, "matched_fragments": 1353, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.13", "min_intra_species_ani": "97.13", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002741105.1", "gtdb_species": "s__Pseudomonas_E sediminis", "ani": 89.4193, "matched_fragments": 1388, "total_fragments": 1696, "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": "95.51", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.85", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_900106015.1", "gtdb_species": "s__Pseudomonas_E sihuiensis", "ani": 89.1431, "matched_fragments": 1362, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 96.7402, "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_002803095.1", "gtdb_species": "s__Pseudomonas_E sp002803095", "ani": 89.064, "matched_fragments": 1354, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.6432, "mean_intra_species_ani": "99.96", "min_intra_species_ani": "99.96", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002197815.1", "gtdb_species": "s__Pseudomonas_E oleovorans", "ani": 88.9549, "matched_fragments": 1166, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 96.52, "mean_intra_species_ani": "97.92", "min_intra_species_ani": "96.68", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.80", "num_clustered_genomes": 18, "status": "-" }, { "accession": "GCF_900115695.1", "gtdb_species": "s__Pseudomonas_E toyotomiensis", "ani": 88.9201, "matched_fragments": 1378, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.1942, "mean_intra_species_ani": "98.17", "min_intra_species_ani": "97.23", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.85", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_900115475.1", "gtdb_species": "s__Pseudomonas_E composti", "ani": 88.8455, "matched_fragments": 1422, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.90", "min_intra_species_ani": "97.79", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_900101755.1", "gtdb_species": "s__Pseudomonas_E alcaliphila", "ani": 88.8144, "matched_fragments": 1400, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.74", "min_intra_species_ani": "97.49", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001567565.1", "gtdb_species": "s__Pseudomonas_E composti_A", "ani": 88.5816, "matched_fragments": 1380, "total_fragments": 1696, "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_000016565.1", "gtdb_species": "s__Pseudomonas_E mendocina_A", "ani": 88.1743, "matched_fragments": 1317, "total_fragments": 1696, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.76", "min_intra_species_ani": "97.37", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 7, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Ectopseudomonas", "mendocina", "NBRC", "14162" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }