{ "type": "genome", "identifier": "GCF_014643495.1", "organism": "Pedobacter psychrotolerans", "title": "Pedobacter psychrotolerans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014643495.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245076", "wgs_master": "BMJO00000000.1", "refseq_category": "na", "taxid": "1843235", "species_taxid": "1843235", "organism_name": "Pedobacter psychrotolerans", "infraspecific_name": "strain=CGMCC 1.15644", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1464349v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014643495.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/643/495/GCF_014643495.1_ASM1464349v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5209679", "genome_size_ungapped": "5209092", "gc_percent": "37.500000", "replicon_count": "0", "scaffold_count": "44", "contig_count": "44", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014643495.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "4396", "protein_coding_gene_count": "4326", "non_coding_gene_count": "55", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-12", "dateModified": "2020-09-12", "datePublished": "2020-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Pedobacter psychrotolerans" ], "sample_taxid": [ "1843235" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.463 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)": "5209679", "Number of Sequences": "44", "Longest Sequences (bp)": "1077193", "N50 (bp)": "879383", "Gap Ratio (%)": "0.011267", "GCcontent (%)": "37.4", "Number of CDSs": "4279", "Average Protein Length": "344.1", "Coding Ratio (%)": "84.8", "Number of rRNAs": "3", "Number of tRNAs": "48", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pedobacter psychrotolerans", "strain": "strain=CGMCC 1.15644", "accession": "GCA_014643495.1", "taxid": 1843235, "species_taxid": 1843235, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1718, "total_fragments": 1720, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pedobacter psychrotolerans", "strain": "strain=DSM 103236", "accession": "GCA_004340665.1", "taxid": 1843235, "species_taxid": 1843235, "relation_to_type": "type", "validated": true, "ani": 99.9981, "matched_fragments": 1716, "total_fragments": 1720, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pedobacter petrophilus", "strain": "strain=LMG 29686", "accession": "GCA_009674725.1", "taxid": 1908241, "species_taxid": 1908241, "relation_to_type": "type", "validated": true, "ani": 81.5472, "matched_fragments": 998, "total_fragments": 1720, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter agri", "strain": "strain=PB92", "accession": "GCA_000258495.1", "taxid": 454586, "species_taxid": 454586, "relation_to_type": "type", "validated": true, "ani": 80.3421, "matched_fragments": 651, "total_fragments": 1720, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter psychrodurus", "strain": "strain=RP-3-21", "accession": "GCA_004331735.1", "taxid": 2530456, "species_taxid": 2530456, "relation_to_type": "type", "validated": true, "ani": 80.2029, "matched_fragments": 726, "total_fragments": 1720, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter chinensis", "strain": "strain=JDX94", "accession": "GCA_003339865.1", "taxid": 2282421, "species_taxid": 2282421, "relation_to_type": "type", "validated": true, "ani": 80.1838, "matched_fragments": 703, "total_fragments": 1720, "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": 80.156, "matched_fragments": 654, "total_fragments": 1720, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter alluvionis", "strain": "strain=DSM 19624", "accession": "GCA_004402005.1", "taxid": 475253, "species_taxid": 475253, "relation_to_type": "type", "validated": true, "ani": 80.1365, "matched_fragments": 772, "total_fragments": 1720, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter alluvionis", "strain": "strain=DSM 19624", "accession": "GCA_003664035.1", "taxid": 475253, "species_taxid": 475253, "relation_to_type": "type", "validated": true, "ani": 80.0817, "matched_fragments": 776, "total_fragments": 1720, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter frigidisoli", "strain": "strain=RP-3-11", "accession": "GCA_004331675.1", "taxid": 2530455, "species_taxid": 2530455, "relation_to_type": "type", "validated": true, "ani": 80.0653, "matched_fragments": 698, "total_fragments": 1720, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter kyonggii", "strain": "strain=K-4-11-1", "accession": "GCA_004310665.1", "taxid": 1926871, "species_taxid": 1926871, "relation_to_type": "type", "validated": true, "ani": 80.0361, "matched_fragments": 724, "total_fragments": 1720, "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": 79.8981, "matched_fragments": 657, "total_fragments": 1720, "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": 79.8679, "matched_fragments": 639, "total_fragments": 1720, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter terrae", "strain": "strain=DSM 17933", "accession": "GCA_900100705.1", "taxid": 405671, "species_taxid": 405671, "relation_to_type": "type", "validated": true, "ani": 79.8074, "matched_fragments": 695, "total_fragments": 1720, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter nototheniae", "strain": "strain=36B243", "accession": "GCA_004335085.1", "taxid": 2488994, "species_taxid": 2488994, "relation_to_type": "type", "validated": true, "ani": 79.7645, "matched_fragments": 590, "total_fragments": 1720, "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": 79.728, "matched_fragments": 731, "total_fragments": 1720, "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": 79.1687, "matched_fragments": 594, "total_fragments": 1720, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobacterium corticibacterium", "strain": "strain=30C10-4-7", "accession": "GCA_004208525.1", "taxid": 2484746, "species_taxid": 2484746, "relation_to_type": "type", "validated": true, "ani": 76.2734, "matched_fragments": 50, "total_fragments": 1720, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004340665.1", "gtdb_species": "s__Pedobacter psychrotolerans", "ani": 99.9981, "matched_fragments": 1716, "total_fragments": 1720, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Pedobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", 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