{ "type": "genome", "identifier": "GCF_000240225.1", "organism": "Patulibacter medicamentivorans", "title": "Patulibacter medicamentivorans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Aalborg University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000240225.1", "bioproject": "PRJNA224116", "biosample": "SAMN02391504", "wgs_master": "AGUD00000000.1", "refseq_category": "reference genome", "taxid": "1097667", "species_taxid": "1097667", "organism_name": "Patulibacter medicamentivorans", "infraspecific_name": "strain=I11", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2011/12/28", "asm_name": "ASM24022v2", "asm_submitter": "Aalborg University", "gbrs_paired_asm": "GCA_000240225.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/240/225/GCF_000240225.1_ASM24022v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5092500", "genome_size_ungapped": "5092500", "gc_percent": "74.000000", "replicon_count": "0", "scaffold_count": "353", "contig_count": "353", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2023-04-24", "total_gene_count": "4758", "protein_coding_gene_count": "4667", "non_coding_gene_count": "51", "pubmed_id": "23212173" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2011-12-28", "dateModified": "2011-12-28", "datePublished": "2011-12-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Patulibacter medicamentivorans" ], "sample_taxid": [ "1097667" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.326 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)": "5092500", "Number of Sequences": "353", "Longest Sequences (bp)": "100107", "N50 (bp)": "24679", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "74.1", "Number of CDSs": "4279", "Average Protein Length": "331.4", "Coding Ratio (%)": "83.5", "Number of rRNAs": "3", "Number of tRNAs": "61", "Number of CRISPRs": "6" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Patulibacter medicamentivorans", "strain": "strain=I11", "accession": "GCA_000240225.2", "taxid": 1097667, "species_taxid": 1097667, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1513, "total_fragments": 1524, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Patulibacter americanus", "strain": "strain=DSM 16676", "accession": "GCA_000420025.1", "taxid": 588672, "species_taxid": 588672, "relation_to_type": "type", "validated": true, "ani": 80.1989, "matched_fragments": 699, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Patulibacter minatonensis", "strain": "strain=DSM 18081", "accession": "GCA_000519325.1", "taxid": 298163, "species_taxid": 298163, "relation_to_type": "type", "validated": true, "ani": 80.015, "matched_fragments": 842, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Conexibacter arvalis", "strain": "strain=DSM 23288", "accession": "GCA_014199525.1", "taxid": 912552, "species_taxid": 912552, "relation_to_type": "type", "validated": true, "ani": 77.4144, "matched_fragments": 705, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraconexibacter algicola", "strain": "strain=Seoho-28", "accession": "GCA_003044185.1", "taxid": 2133960, "species_taxid": 2133960, "relation_to_type": "type", "validated": true, "ani": 77.3987, "matched_fragments": 630, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Conexibacter woesei", "strain": "strain=DSM 14684", "accession": "GCA_000025265.1", "taxid": 191495, "species_taxid": 191495, "relation_to_type": "type", "validated": true, "ani": 77.375, "matched_fragments": 720, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Capillimicrobium parvum", "strain": "strain=0166_1", "accession": "GCA_021172045.1", "taxid": 2884022, "species_taxid": 2884022, "relation_to_type": "type", "validated": true, "ani": 76.923, "matched_fragments": 607, "total_fragments": 1524, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000240225.1", "gtdb_species": "s__Patulibacter medicamentivorans", "ani": 100.0, "matched_fragments": 1513, "total_fragments": 1524, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Patulibacter", "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": "GCA_015478825.1", "gtdb_species": "s__Patulibacter sp015478825", "ani": 81.0562, "matched_fragments": 559, "total_fragments": 1524, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Patulibacter", "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_017916475.1", "gtdb_species": "s__Patulibacter sp017916475", "ani": 80.2884, "matched_fragments": 757, "total_fragments": 1524, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Patulibacter", "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_000420025.1", "gtdb_species": "s__Patulibacter americanus", "ani": 80.1385, "matched_fragments": 707, "total_fragments": 1524, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Patulibacter", "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_000519325.1", "gtdb_species": "s__Patulibacter minatonensis", "ani": 80.0131, "matched_fragments": 842, "total_fragments": 1524, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Patulibacter", "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": "GCA_009699505.1", "gtdb_species": "s__Patulibacter sp009699505", "ani": 79.4086, "matched_fragments": 563, "total_fragments": 1524, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Patulibacter", "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", 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"status": "-" }, { "accession": "GCA_012718975.1", "gtdb_species": "s__JAAYBF01 sp012718975", "ani": 77.0913, "matched_fragments": 466, "total_fragments": 1524, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Thermoleophilaceae;g__JAAYBF01", "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": "GCA_017882375.1", "gtdb_species": "s__Palsa-744 sp017882375", "ani": 76.9049, "matched_fragments": 331, "total_fragments": 1524, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Thermoleophilia;o__Solirubrobacterales;f__Solirubrobacteraceae;g__Palsa-744", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.456, "cell_length": 0.021, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 32.0, "optimum_ph": 6.75, "genome_size": 5092500.0, "gc_content": 74.1, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Patulibacter", "medicamentivorans" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }