{ "type": "genome", "identifier": "GCF_007752345.1", "organism": "Planctopirus ephydatiae", "title": "Planctopirus ephydatiae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Radboud Universiteit Nijmegen", "publication": [ {} ], "properties": { "assembly_accession": "GCF_007752345.1", "bioproject": "PRJNA224116", "biosample": "SAMN10954039", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2528019", "species_taxid": "2528019", "organism_name": "Planctopirus ephydatiae", "infraspecific_name": "strain=spb1", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/07/31", "asm_name": "ASM775234v1", "asm_submitter": "Radboud Universiteit Nijmegen", "gbrs_paired_asm": "GCA_007752345.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/007/752/345/GCF_007752345.1_ASM775234v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5214061", "genome_size_ungapped": "5214061", "gc_percent": "54.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_007752345.1-RS_2024_10_11", "annotation_date": "2024-10-11", "total_gene_count": "3924", "protein_coding_gene_count": "3828", "non_coding_gene_count": "76", "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": [ "Planctopirus ephydatiae" ], "sample_taxid": [ "2528019" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany: Lake Constance" ], "sample_host_location_id": [], "data_size": "1.478 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5214061", "Number of Sequences": "1", "Longest Sequences (bp)": "5214061", "N50 (bp)": "5214061", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "53.8", "Number of CDSs": "3947", "Average Protein Length": "365.0", "Coding Ratio (%)": "82.9", "Number of rRNAs": "3", "Number of tRNAs": "75", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Planctopirus ephydatiae", "strain": "strain=spb1", "accession": "GCA_007752345.1", "taxid": 2528019, "species_taxid": 2528019, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1737, "total_fragments": 1738, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Planctopirus limnophila", "strain": "strain=DSM 3776", "accession": "GCA_000092105.1", "taxid": 120, "species_taxid": 120, "relation_to_type": "type", "validated": true, "ani": 93.6128, "matched_fragments": 1565, "total_fragments": 1738, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planctopirus hydrillae", "strain": "strain=JC280", "accession": "GCA_001707835.1", "taxid": 1841610, "species_taxid": 1841610, "relation_to_type": "type", "validated": true, "ani": 92.2942, "matched_fragments": 1526, "total_fragments": 1738, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Maioricimonas rarisocia", "strain": "strain=Mal4", "accession": "GCA_007747795.1", "taxid": 2528026, "species_taxid": 2528026, "relation_to_type": "type", "validated": true, "ani": 75.8132, "matched_fragments": 51, "total_fragments": 1738, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { 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"min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_001707835.1", "gtdb_species": "s__Planctopirus hydrillae", "ani": 92.2842, "matched_fragments": 1527, "total_fragments": 1738, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Planctomycetales;f__Planctomycetaceae;g__Planctopirus", "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_013822855.1", "gtdb_species": "s__Planctopirus sp013822855", "ani": 77.9279, "matched_fragments": 380, "total_fragments": 1738, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Planctomycetales;f__Planctomycetaceae;g__Planctopirus", "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_903840265.1", "gtdb_species": "s__Schlesneria sp903840265", "ani": 75.1111, "matched_fragments": 55, "total_fragments": 1738, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Planctomycetales;f__Planctomycetaceae;g__Schlesneria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.041, "cell_length": 0.041, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 31.0, "optimum_ph": null, "genome_size": 5460086.0, "gc_content": 54.817, "coding_genes": 4269.667, "rRNA16S_genes": 2.0, "tRNA_genes": 59.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, 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