{ "type": "genome", "identifier": "GCF_007750855.1", "organism": "Pirellulimonas nuda", "title": "Pirellulimonas nuda", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Radboud Universiteit Nijmegen", "publication": [ {} ], "properties": { "assembly_accession": "GCF_007750855.1", "bioproject": "PRJNA224116", "biosample": "SAMN10954029", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2528009", "species_taxid": "2528009", "organism_name": "Pirellulimonas nuda", "infraspecific_name": "strain=Pla175", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/07/31", "asm_name": "ASM775085v1", "asm_submitter": "Radboud Universiteit Nijmegen", "gbrs_paired_asm": "GCA_007750855.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/007/750/855/GCF_007750855.1_ASM775085v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6618662", "genome_size_ungapped": "6618662", "gc_percent": "66.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_007750855.1-RS_2024_10_11", "annotation_date": "2024-10-11", "total_gene_count": "5210", "protein_coding_gene_count": "5107", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-07-31", "dateModified": "2019-07-31", "datePublished": "2019-07-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Pirellulimonas nuda" ], "sample_taxid": [ "2528009" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany: Rostock, Unterwarnow" ], "sample_host_location_id": [], "data_size": "1.827 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)": "6618662", "Number of Sequences": "1", "Longest Sequences (bp)": "6618662", "N50 (bp)": "6618662", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.5", "Number of CDSs": "5233", "Average Protein Length": "362.2", "Coding Ratio (%)": "85.9", "Number of rRNAs": "3", "Number of tRNAs": "58", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pirellulimonas nuda", "strain": "strain=Pla175", "accession": "GCA_007750855.1", "taxid": 2528009, "species_taxid": 2528009, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2206, "total_fragments": 2206, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Posidoniimonas corsicana", "strain": "strain=KOR34", "accession": "GCA_007859765.1", "taxid": 1938618, "species_taxid": 1938618, "relation_to_type": "type", "validated": true, "ani": 78.1775, "matched_fragments": 620, "total_fragments": 2206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudobythopirellula maris", "strain": "strain=Mal64", "accession": "GCA_007859945.1", "taxid": 2527991, "species_taxid": 2527991, "relation_to_type": "type", "validated": true, "ani": 77.9633, "matched_fragments": 511, "total_fragments": 2206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Posidoniimonas polymericola", "strain": "strain=Pla123a", "accession": "GCA_007859935.1", "taxid": 2528002, "species_taxid": 2528002, "relation_to_type": "type", "validated": true, "ani": 77.9632, "matched_fragments": 597, "total_fragments": 2206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Botrimarina mediterranea", "strain": "strain=Spa11", "accession": "GCA_007753265.1", "taxid": 2528022, "species_taxid": 2528022, "relation_to_type": "type", "validated": true, "ani": 77.8178, "matched_fragments": 425, "total_fragments": 2206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Botrimarina colliarenosi", "strain": "strain=Pla108", "accession": "GCA_007859955.1", "taxid": 2528001, "species_taxid": 2528001, "relation_to_type": "type", "validated": true, "ani": 77.7198, "matched_fragments": 458, "total_fragments": 2206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lacipirellula limnantheis", "strain": "strain=I41", "accession": "GCA_007746075.1", "taxid": 2528024, "species_taxid": 2528024, "relation_to_type": "type", "validated": true, "ani": 76.717, "matched_fragments": 257, "total_fragments": 2206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lacipirellula parvula", "strain": "strain=PX69", "accession": "GCA_009177095.1", "taxid": 2650471, "species_taxid": 2650471, "relation_to_type": "type", "validated": true, "ani": 76.6414, "matched_fragments": 266, "total_fragments": 2206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aeoliella mucimassa", "strain": "strain=Pan181", "accession": "GCA_007748035.1", "taxid": 2527972, "species_taxid": 2527972, "relation_to_type": "type", "validated": true, "ani": 76.3365, "matched_fragments": 192, "total_fragments": 2206, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lignipirellula cremea", "strain": "strain=Pla85_3_4", "accession": "GCA_007751035.1", "taxid": 2528010, "species_taxid": 2528010, "relation_to_type": "type", "validated": true, "ani": 75.4861, "matched_fragments": 136, "total_fragments": 2206, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_007750855.1", "gtdb_species": "s__Pirellulimonas nuda", "ani": 100.0, "matched_fragments": 2206, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Pirellulimonas", "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_007859765.1", "gtdb_species": "s__Posidoniimonas corsicana", "ani": 78.1947, "matched_fragments": 616, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Posidoniimonas", "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_007859935.1", "gtdb_species": "s__Posidoniimonas polymericola", "ani": 77.9739, "matched_fragments": 595, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Posidoniimonas", "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_007859945.1", "gtdb_species": "s__Pseudobythopirellula maris", "ani": 77.9735, "matched_fragments": 510, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Pseudobythopirellula", "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_007753265.1", "gtdb_species": "s__Botrimarina mediterranea", "ani": 77.8457, "matched_fragments": 421, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Botrimarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.49", "min_intra_species_ani": "99.49", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_007859955.1", "gtdb_species": "s__Botrimarina colliarenosi", "ani": 77.7344, "matched_fragments": 456, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Botrimarina", "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_007745835.1", "gtdb_species": "s__Botrimarina sp007745835", "ani": 77.6914, "matched_fragments": 480, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Botrimarina", "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_002702655.1", "gtdb_species": "s__GCA-2702655 sp002702655", "ani": 77.144, "matched_fragments": 365, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__GCA-2702655", "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_013822725.1", "gtdb_species": "s__Lacipirellula sp013822725", "ani": 76.9101, "matched_fragments": 192, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Lacipirellula", "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_007746075.1", "gtdb_species": "s__Lacipirellula limnantheis", "ani": 76.7495, "matched_fragments": 253, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Lacipirellula", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.19", "min_intra_species_ani": "97.19", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009177095.1", "gtdb_species": "s__Lacipirellula parvula", "ani": 76.6564, "matched_fragments": 264, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Lacipirellula", "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_001464525.1", "gtdb_species": "s__Ga0077529 sp001464525", "ani": 76.5711, "matched_fragments": 177, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Ga0077529", "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_014192425.1", "gtdb_species": "s__QWPN01 sp014192425", "ani": 76.0345, "matched_fragments": 194, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__UBA1268;g__QWPN01", "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_016199325.1", "gtdb_species": "s__JACQGW01 sp016199325", "ani": 74.6523, "matched_fragments": 52, "total_fragments": 2206, "gtdb_taxonomy": "d__Bacteria;p__Chloroflexota;c__Dehalococcoidia;o__JACQGW01;f__JACQGW01;g__JACQGW01", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Pirellulimonas", "nuda" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }