{ "type": "genome", "identifier": "GCF_014268505.2", "organism": "Pseudomonas khorasanensis", "title": "Pseudomonas khorasanensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "KU Leuven", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014268505.2", "bioproject": "PRJNA224116", "biosample": "SAMN15248346", "wgs_master": "JABWQP000000000.2", "refseq_category": "reference genome", "taxid": "2745508", "species_taxid": "2745508", "organism_name": "Pseudomonas khorasanensis", "infraspecific_name": "strain=SWRI153", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/07/06", "asm_name": "ASM1426850v2", "asm_submitter": "KU Leuven", "gbrs_paired_asm": "GCA_014268505.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/268/505/GCF_014268505.2_ASM1426850v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5637581", "genome_size_ungapped": "5637581", "gc_percent": "59.500000", "replicon_count": "0", "scaffold_count": "71", "contig_count": "71", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014268505.2-RS_2024_07_22", "annotation_date": "2024-07-22", "total_gene_count": "5159", "protein_coding_gene_count": "5017", "non_coding_gene_count": "67", "pubmed_id": "32752051" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-07-06", "dateModified": "2021-07-06", "datePublished": "2021-07-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas khorasanensis" ], "sample_taxid": [ "2745508" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Iran: Khorasan" ], "sample_host_location_id": [], "data_size": "1.580 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)": "5637581", "Number of Sequences": "71", "Longest Sequences (bp)": "1360020", "N50 (bp)": "394261", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.7", "Number of CDSs": "5063", "Average Protein Length": "326.4", "Coding Ratio (%)": "87.9", "Number of rRNAs": "3", "Number of tRNAs": "61", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas khorasanensis", "strain": "strain=SWRI153", "accession": "GCA_014268505.2", "taxid": 2745508, "species_taxid": 2745508, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1854, "total_fragments": 1856, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas triticicola", "strain": "strain=SWRI88", "accession": "GCA_019145375.1", "taxid": 2842345, "species_taxid": 2842345, "relation_to_type": "type", "validated": true, "ani": 89.6876, "matched_fragments": 1590, "total_fragments": 1856, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas siliginis", "strain": "strain=SWRI31", "accession": "GCA_019145195.1", "taxid": 2842346, "species_taxid": 2842346, "relation_to_type": "type", "validated": true, "ani": 89.6362, "matched_fragments": 1550, "total_fragments": 1856, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas iranensis", "strain": "strain=SWRI54", "accession": "GCA_014268585.2", "taxid": 2745503, "species_taxid": 2745503, "relation_to_type": "type", "validated": true, "ani": 89.6352, "matched_fragments": 1623, "total_fragments": 1856, "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": 89.6336, "matched_fragments": 1647, "total_fragments": 1856, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas hamedanensis", "strain": "strain=SWRI65", "accession": "GCA_014268595.2", "taxid": 2745504, "species_taxid": 2745504, "relation_to_type": "type", "validated": true, "ani": 88.8706, "matched_fragments": 1596, "total_fragments": 1856, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas tensinigenes", "strain": "strain=ZA 5.3", "accession": "GCA_014268445.2", "taxid": 2745511, "species_taxid": 2745511, "relation_to_type": "type", "validated": true, "ani": 87.9154, "matched_fragments": 1569, "total_fragments": 1856, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas zeae", "strain": "strain=OE 48.2", "accession": "GCA_014268485.2", "taxid": 2745510, "species_taxid": 2745510, "relation_to_type": "type", "validated": true, "ani": 87.87, "matched_fragments": 1570, "total_fragments": 1856, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas granadensis", "strain": "strain=LMG 27940", "accession": "GCA_900105485.1", "taxid": 1421430, "species_taxid": 1421430, "relation_to_type": "suspected-type", "validated": true, "ani": 87.8632, "matched_fragments": 1568, "total_fragments": 1856, "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": 87.8479, "matched_fragments": 1553, "total_fragments": 1856, "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": 87.8129, "matched_fragments": 1572, "total_fragments": 1856, "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": 87.7814, "matched_fragments": 1552, "total_fragments": 1856, "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": 87.61, "matched_fragments": 1529, "total_fragments": 1856, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas baetica", "strain": "strain=LMG 25716", "accession": "GCA_002813455.1", "taxid": 674054, 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"validated": true, "ani": 87.0078, "matched_fragments": 1484, "total_fragments": 1856, "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": 82.8217, "matched_fragments": 1173, "total_fragments": 1856, "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": 81.4173, "matched_fragments": 794, "total_fragments": 1856, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014268505.2", "gtdb_species": "s__Pseudomonas_E sp014268505", "ani": 100.0, "matched_fragments": 1854, "total_fragments": 1856, "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_004801935.1", "gtdb_species": "s__Pseudomonas_E atacamensis", "ani": 89.6448, "matched_fragments": 1645, "total_fragments": 1856, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.5366, "mean_intra_species_ani": "97.08", "min_intra_species_ani": "95.72", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.89", "num_clustered_genomes": 59, "status": "-" }, { "accession": "GCF_001605965.1", "gtdb_species": "s__Pseudomonas_E koreensis_C", "ani": 89.6202, "matched_fragments": 1612, 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1856, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.71", "min_intra_species_ani": "97.59", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000783395.1", "gtdb_species": "s__Pseudomonas_E helmanticensis", "ani": 87.9637, "matched_fragments": 1553, "total_fragments": 1856, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.23", "min_intra_species_ani": "95.21", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_018138145.1", "gtdb_species": "s__Pseudomonas_E koreensis_A", "ani": 87.9284, "matched_fragments": 1560, "total_fragments": 1856, 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