{ "type": "genome", "identifier": "GCF_005116505.1", "organism": "Pedobacter polaris", "title": "Pedobacter polaris", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Kyonggi University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_005116505.1", "bioproject": "PRJNA224116", "biosample": "SAMN11478358", "wgs_master": "SWBR00000000.1", "refseq_category": "reference genome", "taxid": "2571273", "species_taxid": "2571273", "organism_name": "Pedobacter polaris", "infraspecific_name": "strain=RP-3-22", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/05/02", "asm_name": "ASM511650v1", "asm_submitter": "Kyonggi University", "gbrs_paired_asm": "GCA_005116505.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/005/116/505/GCF_005116505.1_ASM511650v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4574302", "genome_size_ungapped": "4574302", "gc_percent": "35.000000", "replicon_count": "0", "scaffold_count": "15", "contig_count": "15", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_005116505.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3954", "protein_coding_gene_count": "3893", "non_coding_gene_count": "46", "pubmed_id": "32160145" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-05-02", "dateModified": "2019-05-02", "datePublished": "2019-05-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Pedobacter polaris" ], "sample_taxid": [ "2571273" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada: Cambridge Bay, NU" ], "sample_host_location_id": [], "data_size": "1.279 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)": "4574302", "Number of Sequences": "15", "Longest Sequences (bp)": "1467602", "N50 (bp)": "1398487", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.9", "Number of CDSs": "3889", "Average Protein Length": "345.7", "Coding Ratio (%)": "88.2", "Number of rRNAs": "5", "Number of tRNAs": "36", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pedobacter polaris", "strain": "strain=RP-3-22", "accession": "GCA_005116505.1", "taxid": 2571273, "species_taxid": 2571273, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1516, "total_fragments": 1518, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pedobacter frigiditerrae", "strain": "strain=RP-1-13", "accession": "GCA_004331645.1", "taxid": 2530452, "species_taxid": 2530452, "relation_to_type": "type", "validated": true, "ani": 81.7207, "matched_fragments": 900, "total_fragments": 1518, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter planticolens", "strain": "strain=LMG 31464", "accession": "GCA_014172375.1", "taxid": 2679964, "species_taxid": 2679964, "relation_to_type": "type", "validated": true, "ani": 81.1115, "matched_fragments": 735, "total_fragments": 1518, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter cryotolerans", "strain": "strain=AR-2-6", "accession": "GCA_005116475.1", "taxid": 2571270, "species_taxid": 2571270, "relation_to_type": "type", "validated": true, "ani": 80.8988, "matched_fragments": 734, "total_fragments": 1518, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter insulae", "strain": "strain=DSM 18684", "accession": "GCA_900113525.1", "taxid": 414048, "species_taxid": 414048, "relation_to_type": "type", "validated": true, "ani": 78.7614, "matched_fragments": 407, "total_fragments": 1518, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter foliorum", "strain": "strain=LMG 31463", "accession": "GCA_013266735.1", "taxid": 2739058, "species_taxid": 2739058, "relation_to_type": "type", "validated": true, "ani": 78.1787, "matched_fragments": 232, "total_fragments": 1518, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter xixiisoli", "strain": "strain=CGMCC 1.12803", "accession": "GCA_900215335.1", "taxid": 1476464, "species_taxid": 1476464, "relation_to_type": "type", "validated": true, "ani": 78.1328, "matched_fragments": 350, "total_fragments": 1518, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter ureilyticus", "strain": "strain=THG-T11", "accession": "GCA_005925345.1", "taxid": 1393051, "species_taxid": 1393051, "relation_to_type": "type", "validated": true, "ani": 77.9204, "matched_fragments": 309, "total_fragments": 1518, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter metabolipauper", "strain": "strain=DSM 19035", "accession": "GCA_004362715.1", "taxid": 425513, "species_taxid": 425513, "relation_to_type": "type", "validated": true, "ani": 77.8715, "matched_fragments": 191, "total_fragments": 1518, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter ghigonis", "strain": "strain=Marseille-Q2390", "accession": "GCA_903166585.1", "taxid": 2730403, "species_taxid": 2730403, "relation_to_type": "type", "validated": true, "ani": 77.5814, "matched_fragments": 235, "total_fragments": 1518, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter rhizosphaerae", "strain": "strain=DSM 18610", "accession": "GCA_900111155.1", "taxid": 390241, "species_taxid": 390241, "relation_to_type": "type", "validated": true, "ani": 77.5332, "matched_fragments": 235, "total_fragments": 1518, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_005116505.1", "gtdb_species": "s__Pedobacter sp005116505", "ani": 100.0, "matched_fragments": 1516, "total_fragments": 1518, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Pedobacter", "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_004331645.1", "gtdb_species": "s__Pedobacter sp004331645", "ani": 81.7128, "matched_fragments": 901, "total_fragments": 1518, "gtdb_taxonomy": 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"d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Pedobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_005925345.1", "gtdb_species": "s__Pedobacter ureilyticus", "ani": 77.9415, "matched_fragments": 307, "total_fragments": 1518, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Pedobacter", "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_004362715.1", "gtdb_species": "s__Pedobacter metabolipauper", "ani": 77.8692, "matched_fragments": 190, "total_fragments": 1518, "gtdb_taxonomy": 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Pedobacter", "polaris" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }