{ "type": "genome", "identifier": "GCF_003065365.1", "organism": "Polynucleobacter difficilis", "title": "Polynucleobacter difficilis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Innsbruck", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003065365.1", "bioproject": "PRJNA224116", "biosample": "SAMN04086706", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "556054", "species_taxid": "556054", "organism_name": "Polynucleobacter difficilis", "infraspecific_name": "strain=AM-8B5", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/04/23", "asm_name": "ASM306536v1", "asm_submitter": "University of Innsbruck", "gbrs_paired_asm": "GCA_003065365.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/065/365/GCF_003065365.1_ASM306536v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1995529", "genome_size_ungapped": "1995529", "gc_percent": "49.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003065365.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "2053", "protein_coding_gene_count": "1996", "non_coding_gene_count": "45", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-04-23", "dateModified": "2018-04-23", "datePublished": "2018-04-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Polynucleobacter difficilis" ], "sample_taxid": [ "556054" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Armenia: Lake Sevan" ], "sample_host_location_id": [], "data_size": "0.568 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)": "1995529", "Number of Sequences": "1", "Longest Sequences (bp)": "1995529", "N50 (bp)": "1995529", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "49.5", "Number of CDSs": "2002", "Average Protein Length": "309.4", "Coding Ratio (%)": "93.1", "Number of rRNAs": "3", "Number of tRNAs": "38", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Polynucleobacter difficilis", "strain": "strain=AM-8B5", "accession": "GCA_003065365.1", "taxid": 556054, "species_taxid": 556054, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 665, "total_fragments": 665, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Polynucleobacter sinensis", "strain": "strain=MWH-HuW1", "accession": "GCA_001595985.1", "taxid": 1743157, "species_taxid": 1743157, "relation_to_type": "type", "validated": true, "ani": 78.6315, "matched_fragments": 154, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter hirudinilacicola", "strain": "strain=MWH-EgelM1-30-B4", "accession": "GCA_002192535.1", "taxid": 1743166, "species_taxid": 1743166, "relation_to_type": "type", "validated": true, "ani": 78.3557, "matched_fragments": 158, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter bastaniensis", "strain": "strain=AP-Basta-1000A-D1", "accession": "GCA_018882205.1", "taxid": 2081039, "species_taxid": 2081039, "relation_to_type": "type", "validated": true, "ani": 78.3054, "matched_fragments": 154, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter finlandensis", "strain": "strain=MWH-Mekk-B1", "accession": "GCA_018881755.1", "taxid": 1855894, "species_taxid": 1855894, "relation_to_type": "type", "validated": true, "ani": 78.2799, "matched_fragments": 156, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter hallstattensis", "strain": "strain=MWH-Hall10", "accession": "GCA_018881835.1", "taxid": 1855586, "species_taxid": 1855586, "relation_to_type": "type", "validated": true, "ani": 78.2753, "matched_fragments": 172, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter corsicus", "strain": "strain=AP-Melu-1000-A1", "accession": "GCA_018688255.1", "taxid": 2081042, "species_taxid": 2081042, "relation_to_type": "type", "validated": true, "ani": 78.2621, "matched_fragments": 162, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter yangtzensis", "strain": "strain=MWH-JaK3", "accession": "GCA_001595965.1", "taxid": 1743159, "species_taxid": 1743159, "relation_to_type": "type", "validated": true, "ani": 78.2506, "matched_fragments": 150, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter arcticus", "strain": "strain=UK-Long2-W17", "accession": "GCA_013307205.1", "taxid": 1743165, "species_taxid": 1743165, "relation_to_type": "type", "validated": true, "ani": 78.2075, "matched_fragments": 151, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter parvulilacunae", "strain": "strain=Ross1-W9", "accession": "GCA_018881715.1", "taxid": 1855631, "species_taxid": 1855631, "relation_to_type": "type", "validated": true, "ani": 78.1677, "matched_fragments": 159, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter sphagniphilus", "strain": "strain=MWH-Weng1-1", "accession": "GCA_001953355.1", "taxid": 1743169, "species_taxid": 1743169, "relation_to_type": "type", "validated": true, "ani": 78.142, "matched_fragments": 146, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter nymphae", "strain": "strain=AP-Mumm-500A-B3", "accession": "GCA_018882155.1", "taxid": 2081043, "species_taxid": 2081043, "relation_to_type": "type", "validated": true, "ani": 78.0798, "matched_fragments": 152, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter antarcticus", "strain": "strain=LimPoW16", "accession": "GCA_013307245.1", "taxid": 1743162, "species_taxid": 1743162, "relation_to_type": "type", "validated": true, "ani": 77.9513, "matched_fragments": 155, "total_fragments": 665, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003065365.1", "gtdb_species": "s__Polynucleobacter difficilis", "ani": 100.0, "matched_fragments": 665, "total_fragments": 665, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.23", "min_intra_species_ani": "96.23", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_000016345.1", "gtdb_species": "s__Polynucleobacter asymbioticus", "ani": 78.554, "matched_fragments": 128, "total_fragments": 665, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.87", "min_intra_species_ani": "97.92", "mean_intra_species_af": 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