{ "type": "genome", "identifier": "GCF_011355085.1", "organism": "Pseudomonas akapageensis", "title": "Pseudomonas akapageensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Juntendo University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_011355085.1", "bioproject": "PRJNA224116", "biosample": "SAMN12740357", "wgs_master": "VXCP00000000.1", "refseq_category": "reference genome", "taxid": "2609961", "species_taxid": "2609961", "organism_name": "Pseudomonas akapageensis", "infraspecific_name": "strain=PS24", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/03/16", "asm_name": "ASM1135508v1", "asm_submitter": "Juntendo University", "gbrs_paired_asm": "GCA_011355085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/011/355/085/GCF_011355085.1_ASM1135508v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6373949", "genome_size_ungapped": "6373029", "gc_percent": "60.000000", "replicon_count": "0", "scaffold_count": "89", "contig_count": "89", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_011355085.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "5836", "protein_coding_gene_count": "5663", "non_coding_gene_count": "65", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-03-16", "dateModified": "2020-03-16", "datePublished": "2020-03-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas akapageensis" ], "sample_taxid": [ "2609961" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan: Izu Oshima" ], "sample_host_location_id": [], "data_size": "1.798 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)": "6373949", "Number of Sequences": "89", "Longest Sequences (bp)": "499564", "N50 (bp)": "126451", "Gap Ratio (%)": "0.014559", "GCcontent (%)": "60.2", "Number of CDSs": "5738", "Average Protein Length": "325.8", "Coding Ratio (%)": "88.0", "Number of rRNAs": "6", "Number of tRNAs": "56", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas brassicae", "strain": "strain=MAFF 212427", "accession": "GCA_010671725.1", "taxid": 2708063, "species_taxid": 2708063, "relation_to_type": "type", "validated": true, "ani": 82.8352, "matched_fragments": 837, "total_fragments": 2084, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas chlororaphis subsp. aureofaciens", "strain": "strain=DSM 6698", "accession": "GCA_003851905.1", "taxid": 587851, "species_taxid": 587753, "relation_to_type": "type", "validated": true, "ani": 82.7965, "matched_fragments": 1109, "total_fragments": 2084, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas chlororaphis subsp. aureofaciens", "strain": "strain=NBRC 3521", "accession": "GCA_000813225.1", "taxid": 587851, "species_taxid": 587753, "relation_to_type": "type", "validated": true, "ani": 82.7927, "matched_fragments": 1099, "total_fragments": 2084, "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": 82.7789, "matched_fragments": 1114, "total_fragments": 2084, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas chlororaphis subsp. piscium", "strain": "strain=DSM 21509", "accession": "GCA_001269555.1", "taxid": 1513890, "species_taxid": 587753, "relation_to_type": "type", "validated": true, "ani": 82.7241, "matched_fragments": 1120, "total_fragments": 2084, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas chlororaphis subsp. piscium", "strain": "strain=DSM 21509", "accession": "GCA_003850345.1", "taxid": 1513890, "species_taxid": 587753, "relation_to_type": "type", "validated": true, "ani": 82.7111, "matched_fragments": 1110, "total_fragments": 2084, "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": 82.5477, "matched_fragments": 959, "total_fragments": 2084, "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": 82.5195, "matched_fragments": 1089, "total_fragments": 2084, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas protegens", "strain": "strain=CHA0", "accession": "GCA_000397205.1", "taxid": 380021, "species_taxid": 380021, "relation_to_type": "type", "validated": true, "ani": 82.3897, "matched_fragments": 1049, "total_fragments": 2084, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas protegens", "strain": "strain=CHA0", "accession": "GCA_900560965.1", "taxid": 380021, "species_taxid": 380021, "relation_to_type": "type", "validated": true, "ani": 82.3834, "matched_fragments": 1043, "total_fragments": 2084, "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": 82.3782, "matched_fragments": 1051, "total_fragments": 2084, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas laurylsulfatiphila", "strain": "strain=AP3_16", "accession": "GCA_002934665.1", "taxid": 2011015, "species_taxid": 2011015, "relation_to_type": "type", "validated": true, "ani": 82.2602, "matched_fragments": 1196, "total_fragments": 2084, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas pharyngis", "strain": "strain=BML-PP036", "accession": "GCA_021602345.1", "taxid": 2892333, "species_taxid": 2892333, "relation_to_type": "type", "validated": true, "ani": 82.2427, "matched_fragments": 1037, "total_fragments": 2084, "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": 82.2338, "matched_fragments": 920, "total_fragments": 2084, "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": 82.133, "matched_fragments": 863, "total_fragments": 2084, "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": 82.0465, "matched_fragments": 1136, "total_fragments": 2084, "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": 82.0142, "matched_fragments": 1016, "total_fragments": 2084, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas viciae", "strain": "strain=11K1", "accession": "GCA_004786035.1", "taxid": 2505979, "species_taxid": 2505979, "relation_to_type": "type", "validated": true, "ani": 81.9635, "matched_fragments": 943, "total_fragments": 2084, "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": 81.9402, "matched_fragments": 995, "total_fragments": 2084, "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", 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"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": 81.556, "matched_fragments": 749, "total_fragments": 2084, "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": 81.452, "matched_fragments": 769, "total_fragments": 2084, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_011355085.1", "gtdb_species": "s__Pseudomonas_E sp011355085", "ani": 100.0, "matched_fragments": 2081, "total_fragments": 2084, "gtdb_taxonomy": 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