{ "type": "genome", "identifier": "GCF_003261235.1", "organism": "Polynucleobacter paneuropaeus", "title": "Polynucleobacter paneuropaeus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Innsbruck", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003261235.1", "bioproject": "PRJNA224116", "biosample": "SAMN03430691", "wgs_master": "na", "refseq_category": "na", "taxid": "2527775", "species_taxid": "2527775", "organism_name": "Polynucleobacter paneuropaeus", "infraspecific_name": "strain=MG-25-Pas1-D2", "isolate": "na", "version_status": "latest", "assembly_level": "Chromosome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/06/25", "asm_name": "ASM326123v1", "asm_submitter": "University of Innsbruck", "gbrs_paired_asm": "GCA_003261235.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/261/235/GCF_003261235.1_ASM326123v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1833375", "genome_size_ungapped": "1830428", "gc_percent": "45.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003261235.1-RS_2024_11_18", "annotation_date": "2024-11-18", "total_gene_count": "1923", "protein_coding_gene_count": "1864", "non_coding_gene_count": "45", "pubmed_id": "30465643" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-06-25", "dateModified": "2018-06-25", "datePublished": "2018-06-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Polynucleobacter paneuropaeus" ], "sample_taxid": [ "2527775" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Norway" ], "sample_host_location_id": [], "data_size": "0.522 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)": "1833375", "Number of Sequences": "1", "Longest Sequences (bp)": "1833375", "N50 (bp)": "1833375", "Gap Ratio (%)": "0.161015", "GCcontent (%)": "45.6", "Number of CDSs": "1851", "Average Protein Length": "304.1", "Coding Ratio (%)": "92.1", "Number of rRNAs": "3", "Number of tRNAs": "38", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Polynucleobacter paneuropaeus", "strain": "strain=MG-25-Pas1-D2", "accession": "GCA_003261235.1", "taxid": 2527775, "species_taxid": 2527775, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 611, "total_fragments": 611, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Polynucleobacter paludilacus", "strain": "strain=MWH-Mekk-C3", "accession": "GCA_018687595.1", "taxid": 1855895, "species_taxid": 1855895, "relation_to_type": "type", "validated": true, "ani": 86.1131, "matched_fragments": 487, "total_fragments": 611, "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": 79.6454, "matched_fragments": 230, "total_fragments": 611, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter wuianus", "strain": "strain=QLW-P1FAT50C-4", "accession": "GCA_001659725.1", "taxid": 1743168, "species_taxid": 1743168, "relation_to_type": "type", "validated": true, "ani": 79.4316, "matched_fragments": 228, "total_fragments": 611, "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": 79.4224, "matched_fragments": 205, "total_fragments": 611, "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": 79.4088, "matched_fragments": 229, "total_fragments": 611, "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": 79.3652, "matched_fragments": 254, "total_fragments": 611, "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": 79.3358, "matched_fragments": 235, "total_fragments": 611, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter alcilacus", "strain": "strain=UK-Pondora-W15", "accession": "GCA_018881545.1", "taxid": 1819739, "species_taxid": 1819739, "relation_to_type": "type", "validated": true, "ani": 79.2829, "matched_fragments": 232, "total_fragments": 611, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter aenigmaticus", "strain": "strain=MWH-K35W1", "accession": "GCA_002206635.1", "taxid": 1743164, "species_taxid": 1743164, "relation_to_type": "type", "validated": true, "ani": 79.2631, "matched_fragments": 221, "total_fragments": 611, "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": 79.1812, "matched_fragments": 232, "total_fragments": 611, "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": 79.1784, "matched_fragments": 233, "total_fragments": 611, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polynucleobacter tropicus", "strain": "strain=MWH-UH21B", "accession": "GCA_013307225.1", "taxid": 1743174, "species_taxid": 1743174, "relation_to_type": "type", "validated": true, "ani": 78.9525, "matched_fragments": 206, "total_fragments": 611, "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": 78.8688, "matched_fragments": 201, "total_fragments": 611, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003261235.1", "gtdb_species": "s__Polynucleobacter paneuropaeus", "ani": 100.0, "matched_fragments": 611, "total_fragments": 611, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.74", "min_intra_species_ani": "98.42", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.83", "num_clustered_genomes": 33, "status": "conclusive" }, { "accession": "GCF_018687595.1", "gtdb_species": "s__Polynucleobacter asymbioticus_B", "ani": 86.1029, "matched_fragments": 488, "total_fragments": 611, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "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_018687555.1", "gtdb_species": "s__Polynucleobacter sp018687555", "ani": 84.631, "matched_fragments": 455, "total_fragments": 611, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Polynucleobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.44", "min_intra_species_ani": "97.44", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018687815.1", "gtdb_species": "s__Polynucleobacter sp018687815", "ani": 79.7241, 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