{ "type": "genome", "identifier": "GCF_014172375.1", "organism": "Pedobacter planticolens", "title": "Pedobacter planticolens", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Ghent University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014172375.1", "bioproject": "PRJNA224116", "biosample": "SAMN13389012", "wgs_master": "WNXD00000000.1", "refseq_category": "reference genome", "taxid": "2679964", "species_taxid": "2679964", "organism_name": "Pedobacter planticolens", "infraspecific_name": "strain=LMG 31464", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/12", "asm_name": "ASM1417237v1", "asm_submitter": "Ghent University", "gbrs_paired_asm": "GCA_014172375.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/172/375/GCF_014172375.1_ASM1417237v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4057176", "genome_size_ungapped": "4057176", "gc_percent": "35.000000", "replicon_count": "0", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014172375.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3491", "protein_coding_gene_count": "3443", "non_coding_gene_count": "42", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-12", "dateModified": "2020-08-12", "datePublished": "2020-08-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Pedobacter planticolens" ], "sample_taxid": [ "2679964" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Belgium:Ghent" ], "sample_host_location_id": [], "data_size": "1.133 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)": "4057176", "Number of Sequences": "3", "Longest Sequences (bp)": "2105539", "N50 (bp)": "2105539", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "35.1", "Number of CDSs": "3443", "Average Protein Length": "346.5", "Coding Ratio (%)": "88.2", "Number of rRNAs": "3", "Number of tRNAs": "34", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pedobacter planticolens", "strain": "strain=LMG 31464", "accession": "GCA_014172375.1", "taxid": 2679964, "species_taxid": 2679964, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1351, "total_fragments": 1351, "ani_threshold": 95, "status": "conclusive" }, { "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": 81.0067, "matched_fragments": 750, "total_fragments": 1351, "ani_threshold": 95, "status": "below_threshold" }, { "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": 80.994, "matched_fragments": 763, "total_fragments": 1351, "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": 80.5475, "matched_fragments": 641, "total_fragments": 1351, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter namyangjuensis", "strain": "strain=5G38", "accession": "GCA_003313325.1", "taxid": 600626, "species_taxid": 600626, "relation_to_type": "type", "validated": true, "ani": 79.3661, "matched_fragments": 535, "total_fragments": 1351, "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": 78.8748, "matched_fragments": 420, "total_fragments": 1351, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter xixiisoli", "strain": "strain=S27", "accession": "GCA_005925365.1", "taxid": 1476464, "species_taxid": 1476464, "relation_to_type": "type", "validated": true, "ani": 78.4479, "matched_fragments": 327, "total_fragments": 1351, "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": 78.4294, "matched_fragments": 328, "total_fragments": 1351, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter ginsenosidimutans", "strain": "strain=KACC 14530", "accession": "GCA_001442625.1", "taxid": 687842, "species_taxid": 687842, "relation_to_type": "type", "validated": true, "ani": 78.0788, "matched_fragments": 301, "total_fragments": 1351, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter fastidiosus", "strain": "strain=CCM 8938", "accession": "GCA_014306625.1", "taxid": 2765361, "species_taxid": 2765361, "relation_to_type": "type", "validated": true, "ani": 78.0767, "matched_fragments": 358, "total_fragments": 1351, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter borealis", "strain": "strain=DSM 19626", "accession": "GCA_000708285.2", "taxid": 475254, "species_taxid": 475254, "relation_to_type": "type", "validated": true, "ani": 77.9735, "matched_fragments": 275, "total_fragments": 1351, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter mucosus", "strain": "strain=Q8-18", "accession": "GCA_022200785.1", "taxid": 2895286, "species_taxid": 2895286, "relation_to_type": "type", "validated": true, "ani": 77.9594, "matched_fragments": 308, "total_fragments": 1351, "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": 77.8213, "matched_fragments": 333, "total_fragments": 1351, "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", 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"N/A", "num_clustered_genomes": 1, "status": "conclusive" }, { "accession": "GCF_013204825.1", "gtdb_species": "s__Pedobacter boryungensis", "ani": 85.4063, "matched_fragments": 907, "total_fragments": 1351, "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_004331645.1", "gtdb_species": "s__Pedobacter sp004331645", "ani": 81.0073, "matched_fragments": 761, "total_fragments": 1351, "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, 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"GCF_001412215.1", "gtdb_species": "s__Pedobacter sp001412215", "ani": 80.4982, "matched_fragments": 632, "total_fragments": 1351, "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": "GCA_014377775.1", "gtdb_species": "s__Pedobacter sp014377775", "ani": 78.954, "matched_fragments": 381, "total_fragments": 1351, "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_005925345.1", "gtdb_species": 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