{ "type": "genome", "identifier": "GCF_001293525.1", "organism": "Piscinibacter sakaiensis", "title": "Piscinibacter sakaiensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Department of Polymer Chemistry, Graduate School of Engineering, Kyoto University, 302 Katsura Int'tech Center Kyotodaigaku-Katsura, Nishikyo-ku, Kyoto 615-8530, Japan", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001293525.1", "bioproject": "PRJNA224116", "biosample": "SAMD00034998", "wgs_master": "BBYR00000000.1", "refseq_category": "reference genome", "taxid": "1547922", "species_taxid": "1547922", "organism_name": "Piscinibacter sakaiensis", "infraspecific_name": "strain=201-F6", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/07/29", "asm_name": "ASM129352v1", "asm_submitter": "Department of Polymer Chemistry, Graduate School of Engineering, Kyoto University, 302 Katsura Int'tech Center Kyotodaigaku-Katsura, Nishikyo-ku, Kyoto 615-8530, Japan", "gbrs_paired_asm": "GCA_001293525.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/293/525/GCF_001293525.1_ASM129352v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6142063", "genome_size_ungapped": "6142063", "gc_percent": "73.000000", "replicon_count": "0", "scaffold_count": "227", "contig_count": "227", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001293525.1-RS_2024_08_12", "annotation_date": "2024-08-12", "total_gene_count": "5703", "protein_coding_gene_count": "5554", "non_coding_gene_count": "52", "pubmed_id": "26965627" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-07-29", "dateModified": "2015-07-29", "datePublished": "2015-07-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Piscinibacter sakaiensis" ], "sample_taxid": [ "1547922" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan: Sakai city" ], "sample_host_location_id": [], "data_size": "1.616 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)": "6142063", "Number of Sequences": "227", "Longest Sequences (bp)": "290390", "N50 (bp)": "94070", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.9", "Number of CDSs": "5502", "Average Protein Length": "333.4", "Coding Ratio (%)": "89.6", "Number of rRNAs": "2", "Number of tRNAs": "62", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rubrivivax benzoatilyticus", "strain": "strain=JA2", "accession": "GCA_000190375.2", "taxid": 316997, "species_taxid": 316997, "relation_to_type": "type", "validated": true, "ani": 81.1829, "matched_fragments": 803, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schlegelella thermodepolymerans", "strain": "strain=DSM 15344", "accession": "GCA_002933415.1", "taxid": 215580, "species_taxid": 215580, "relation_to_type": "type", "validated": true, "ani": 81.1379, "matched_fragments": 780, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schlegelella thermodepolymerans", "strain": "strain=DSM 15344", "accession": "GCA_015476235.1", "taxid": 215580, "species_taxid": 215580, "relation_to_type": "type", "validated": true, "ani": 81.1229, "matched_fragments": 777, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrivivax benzoatilyticus", "strain": "strain=JA2", "accession": "GCA_000420125.1", "taxid": 316997, "species_taxid": 316997, "relation_to_type": "type", "validated": true, "ani": 81.0821, "matched_fragments": 828, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schlegelella thermodepolymerans", "strain": "strain=DSM 15344", "accession": "GCA_003349825.1", "taxid": 215580, "species_taxid": 215580, "relation_to_type": "type", "validated": true, "ani": 81.0158, "matched_fragments": 785, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrivivax gelatinosus", "strain": "strain=DSM 1709", "accession": "GCA_016583525.1", "taxid": 28068, "species_taxid": 28068, "relation_to_type": "suspected-type", "validated": true, "ani": 80.7278, "matched_fragments": 896, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrivivax 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"GCA_003201595.1", "taxid": 744406, "species_taxid": 744406, "relation_to_type": "type", "validated": true, "ani": 80.1976, "matched_fragments": 767, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ideonella dechloratans", "strain": "strain=CCUG 30977", "accession": "GCA_021049305.1", "taxid": 36863, "species_taxid": 36863, "relation_to_type": "type", "validated": true, "ani": 79.8418, "matched_fragments": 727, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelomonas saccharophila", "strain": "strain=DSM 654", "accession": "GCA_004342485.1", "taxid": 304, "species_taxid": 304, "relation_to_type": "type", "validated": true, "ani": 79.8167, "matched_fragments": 833, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobacter gummiphilus", "strain": "strain=NBRC 109400", "accession": "GCA_002762215.1", "taxid": 946333, "species_taxid": 946333, "relation_to_type": "type", "validated": true, "ani": 79.7321, "matched_fragments": 856, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhizobacter gummiphilus", "strain": "strain=NS21", "accession": "GCA_002116905.1", "taxid": 946333, "species_taxid": 946333, "relation_to_type": "type", "validated": true, "ani": 79.709, "matched_fragments": 860, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azohydromonas australica", "strain": "strain=DSM 1124", "accession": "GCA_000430725.1", "taxid": 364039, "species_taxid": 364039, "relation_to_type": "type", "validated": true, "ani": 79.5997, "matched_fragments": 938, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ideonella benzenivorans", "strain": "strain=B7", "accession": "GCA_020387415.1", "taxid": 2831643, "species_taxid": 2831643, "relation_to_type": "type", "validated": true, "ani": 79.5867, "matched_fragments": 702, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azohydromonas caseinilytica", "strain": "strain=G-1-1-14", "accession": "GCA_012927045.1", "taxid": 2728836, "species_taxid": 2728836, "relation_to_type": "type", "validated": true, "ani": 79.5759, "matched_fragments": 915, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azohydromonas aeria", "strain": "strain=CFCC 13393", "accession": "GCA_009760915.1", "taxid": 2590212, "species_taxid": 2590212, "relation_to_type": "type", "validated": true, "ani": 79.5707, "matched_fragments": 983, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schlegelella brevitalea", "strain": "strain=DSM 7029", "accession": "GCA_001017435.1", "taxid": 413882, "species_taxid": 413882, "relation_to_type": "type", "validated": true, "ani": 79.4502, "matched_fragments": 735, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter pinisoli", "strain": "strain=MAH-25", "accession": "GCA_009758015.1", "taxid": 2682844, "species_taxid": 2682844, "relation_to_type": "type", "validated": true, "ani": 79.1661, "matched_fragments": 800, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paucibacter toxinivorans", "strain": "strain=DSM 16998", "accession": "GCA_004362525.1", "taxid": 270368, "species_taxid": 270368, "relation_to_type": "type", "validated": true, "ani": 79.1535, "matched_fragments": 835, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Variovorax soli", "strain": "strain=NBRC 106424", "accession": "GCA_001591385.1", "taxid": 376815, "species_taxid": 376815, "relation_to_type": "type", "validated": true, "ani": 78.7695, "matched_fragments": 716, "total_fragments": 1961, "ani_threshold": 95, "status": "below_threshold" } ], 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"filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Piscinibacter", "sakaiensis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }