{ "type": "genome", "identifier": "GCF_009724245.1", "organism": "Pseudomonas spelaei", "title": "Pseudomonas spelaei", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Masaryk University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009724245.1", "bioproject": "PRJNA224116", "biosample": "SAMN13241946", "wgs_master": "WNNK00000000.1", "refseq_category": "reference genome", "taxid": "1055469", "species_taxid": "1055469", "organism_name": "Pseudomonas spelaei", "infraspecific_name": "strain=CCM 7893", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/12/01", "asm_name": "ASM972424v1", "asm_submitter": "Masaryk University", "gbrs_paired_asm": "GCA_009724245.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/724/245/GCF_009724245.1_ASM972424v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6565722", "genome_size_ungapped": "6565722", "gc_percent": "59.500000", "replicon_count": "0", "scaffold_count": "97", "contig_count": "97", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009724245.1-RS_2024_05_05", "annotation_date": "2024-05-05", "total_gene_count": "5896", "protein_coding_gene_count": "5750", "non_coding_gene_count": "67", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-12-01", "dateModified": "2019-12-01", "datePublished": "2019-12-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas spelaei" ], "sample_taxid": [ "1055469" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Czech Republic: Moravian Karst, Suchozlebska zazdena cave" ], "sample_host_location_id": [], "data_size": "1.855 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)": "6565722", "Number of Sequences": "97", "Longest Sequences (bp)": "459757", "N50 (bp)": "200812", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.3", "Number of CDSs": "5842", "Average Protein Length": "332.0", "Coding Ratio (%)": "88.6", "Number of rRNAs": "3", "Number of tRNAs": "62", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas spelaei", "strain": "strain=CCM 7893", "accession": "GCA_009724245.1", "taxid": 1055469, "species_taxid": 1055469, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2146, "total_fragments": 2150, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudomonas karstica", "strain": "strain=CCM 7891", "accession": "GCA_009707515.1", "taxid": 1055468, "species_taxid": 1055468, "relation_to_type": "type", "validated": true, "ani": 88.0733, "matched_fragments": 1404, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas yamanorum", "strain": "strain=LMG 27247", "accession": "GCA_900105735.1", "taxid": 515393, "species_taxid": 515393, "relation_to_type": "suspected-type", "validated": true, "ani": 87.5119, "matched_fragments": 1641, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas brenneri", "strain": "strain=JCM 13307", "accession": "GCA_014646715.1", "taxid": 129817, "species_taxid": 129817, "relation_to_type": "type", "validated": true, "ani": 86.5024, "matched_fragments": 1470, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas brenneri", "strain": "strain=DSM 15294", "accession": "GCA_007858285.1", "taxid": 129817, "species_taxid": 129817, "relation_to_type": "type", "validated": true, "ani": 86.4996, "matched_fragments": 1470, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas gessardii", "strain": "strain=DSM 17152", "accession": "GCA_009671285.1", "taxid": 78544, "species_taxid": 78544, "relation_to_type": "type", "validated": true, "ani": 86.435, "matched_fragments": 1449, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas proteolytica", "strain": "strain=DSM 15321", "accession": "GCA_007858275.1", "taxid": 219574, "species_taxid": 219574, "relation_to_type": "type", "validated": true, "ani": 86.3193, "matched_fragments": 1441, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas proteolytica", "strain": "strain=CCUG 51515T", "accession": "GCA_008692865.1", "taxid": 219574, "species_taxid": 219574, "relation_to_type": "type", "validated": true, "ani": 86.2886, "matched_fragments": 1427, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas marginalis", "strain": "strain=DSM 13124", "accession": "GCA_007858155.1", "taxid": 298, "species_taxid": 298, "relation_to_type": "suspected-type", "validated": true, "ani": 86.1906, "matched_fragments": 1478, "total_fragments": 2150, "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": 86.1215, "matched_fragments": 1491, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas marginalis", "strain": "strain=ICMP 3553", "accession": "GCA_003700725.1", "taxid": 298, "species_taxid": 298, "relation_to_type": "suspected-type", "validated": true, "ani": 86.0669, "matched_fragments": 1376, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas fluorescens", "strain": "strain=DSM 50090", "accession": "GCA_007858165.1", "taxid": 294, "species_taxid": 294, "relation_to_type": "suspected-type", "validated": true, "ani": 85.959, "matched_fragments": 1493, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas salomonii", "strain": "strain=ICMP 14252", "accession": "GCA_900107155.1", "taxid": 191391, "species_taxid": 191391, "relation_to_type": "type", "validated": true, "ani": 85.9404, "matched_fragments": 1533, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas fluorescens", "strain": "strain=NCTC10038", "accession": "GCA_900475215.1", "taxid": 294, "species_taxid": 294, "relation_to_type": "suspected-type", "validated": true, "ani": 85.917, "matched_fragments": 1494, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas salomonii", "strain": "strain=LMG 22120", "accession": "GCA_001730645.1", "taxid": 191391, "species_taxid": 191391, "relation_to_type": "type", "validated": true, "ani": 85.8888, "matched_fragments": 1547, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas lurida", "strain": "strain=LMG 21995", "accession": "GCA_002563895.1", "taxid": 244566, "species_taxid": 244566, "relation_to_type": "type", "validated": true, "ani": 85.8871, "matched_fragments": 1479, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas simiae", "strain": "strain=CCUG 50988", "accession": "GCA_900111895.1", "taxid": 321846, "species_taxid": 321846, "relation_to_type": "type", "validated": true, "ani": 85.8538, "matched_fragments": 1470, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas simiae", "strain": "strain=CCUG 50988", "accession": "GCA_001730615.1", "taxid": 321846, "species_taxid": 321846, "relation_to_type": "type", "validated": true, "ani": 85.8004, "matched_fragments": 1474, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas pisciculturae", "strain": "strain=P115", "accession": "GCA_015461805.1", "taxid": 2730413, "species_taxid": 2730413, "relation_to_type": "type", "validated": true, "ani": 85.6509, "matched_fragments": 1373, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas poae", "strain": "strain=LMG 21465", "accession": "GCA_001730605.1", "taxid": 200451, "species_taxid": 200451, "relation_to_type": "type", "validated": true, "ani": 85.3699, "matched_fragments": 1274, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas kitaguniensis", "strain": "strain=MAFF 212408", "accession": "GCA_009296165.1", "taxid": 2607908, "species_taxid": 2607908, "relation_to_type": "type", "validated": true, "ani": 85.261, "matched_fragments": 1228, "total_fragments": 2150, "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": 80.6051, "matched_fragments": 773, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas kuykendallii", "strain": "strain=NRRL B-59562", "accession": "GCA_900106975.1", "taxid": 1007099, "species_taxid": 1007099, "relation_to_type": "type", "validated": true, "ani": 79.4414, "matched_fragments": 635, 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"below_threshold" }, { "organism_name": "Chitinimonas arctica", "strain": "strain=R3-44", "accession": "GCA_007431345.1", "taxid": 2594795, "species_taxid": 2594795, "relation_to_type": "type", "validated": true, "ani": 75.6237, "matched_fragments": 81, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Noviherbaspirillum aerium", "strain": "strain=122213-3", "accession": "GCA_008929045.1", "taxid": 2588497, "species_taxid": 2588497, "relation_to_type": "type", "validated": true, "ani": 75.3508, "matched_fragments": 96, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Caballeronia glathei", "strain": "strain=DSM 50014", "accession": "GCA_000698595.1", "taxid": 60547, "species_taxid": 60547, "relation_to_type": "type", "validated": true, "ani": 75.3269, "matched_fragments": 97, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Caballeronia glathei", "strain": "strain=LMG 14190", "accession": "GCA_000751215.2", "taxid": 60547, "species_taxid": 60547, "relation_to_type": "type", "validated": true, "ani": 75.312, "matched_fragments": 95, "total_fragments": 2150, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013403585.1", "gtdb_species": "s__Pseudomonas_E yamanorum_B", "ani": 98.3182, "matched_fragments": 1915, "total_fragments": 2150, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.31", "min_intra_species_ani": "98.31", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_012935695.1", "gtdb_species": "s__Pseudomonas_E sp012935695", "ani": 93.3713, 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