{ "type": "genome", "identifier": "GCF_014306625.1", "organism": "Pedobacter fastidiosus", "title": "Pedobacter fastidiosus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MRCEN World Data Centre for Microoganisms(WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014306625.1", "bioproject": "PRJNA224116", "biosample": "SAMN15834246", "wgs_master": "JACRYL000000000.1", "refseq_category": "reference genome", "taxid": "2765361", "species_taxid": "2765361", "organism_name": "Pedobacter fastidiosus", "infraspecific_name": "strain=CCM 8938", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/26", "asm_name": "ASM1430662v1", "asm_submitter": "WFCC-MRCEN World Data Centre for Microoganisms(WDCM)", "gbrs_paired_asm": "GCA_014306625.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/306/625/GCF_014306625.1_ASM1430662v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5270233", "genome_size_ungapped": "5265532", "gc_percent": "36.500000", "replicon_count": "0", "scaffold_count": "65", "contig_count": "65", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014306625.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "4604", "protein_coding_gene_count": "4526", "non_coding_gene_count": "49", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-26", "dateModified": "2020-08-26", "datePublished": "2020-08-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Pedobacter fastidiosus" ], "sample_taxid": [ "2765361" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica: James Ross Island" ], "sample_host_location_id": [], "data_size": "1.480 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)": "5270233", "Number of Sequences": "65", "Longest Sequences (bp)": "505103", "N50 (bp)": "232843", "Gap Ratio (%)": "0.089199", "GCcontent (%)": "36.3", "Number of CDSs": "4456", "Average Protein Length": "335.1", "Coding Ratio (%)": "85.0", "Number of rRNAs": "6", "Number of tRNAs": "39", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pedobacter fastidiosus", "strain": "strain=CCM 8938", "accession": "GCA_014306625.1", "taxid": 2765361, "species_taxid": 2765361, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1722, "total_fragments": 1726, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pedobacter yonginense", "strain": "strain=KCTC22721", "accession": "GCA_003173595.1", "taxid": 651869, "species_taxid": 651869, "relation_to_type": "type", "validated": true, "ani": 82.3021, "matched_fragments": 958, "total_fragments": 1726, "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": 81.8845, "matched_fragments": 861, "total_fragments": 1726, "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": 80.6868, "matched_fragments": 761, "total_fragments": 1726, "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": 80.5581, "matched_fragments": 750, "total_fragments": 1726, "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": 80.5566, "matched_fragments": 719, "total_fragments": 1726, "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": 80.4971, "matched_fragments": 758, "total_fragments": 1726, "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": 80.3586, "matched_fragments": 722, "total_fragments": 1726, "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": 80.2904, "matched_fragments": 639, "total_fragments": 1726, "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": 80.1833, "matched_fragments": 722, "total_fragments": 1726, "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": 80.1615, "matched_fragments": 699, "total_fragments": 1726, "ani_threshold": 95, "status": "below_threshold" }, { "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": 79.9743, "matched_fragments": 645, "total_fragments": 1726, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter psychrotolerans", "strain": "strain=DSM 103236", "accession": "GCA_004340665.1", "taxid": 1843235, "species_taxid": 1843235, "relation_to_type": "type", "validated": true, "ani": 79.9385, "matched_fragments": 641, "total_fragments": 1726, "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": 79.7562, "matched_fragments": 693, "total_fragments": 1726, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter changchengzhani", "strain": "strain=E01020", "accession": "GCA_004354365.1", "taxid": 2529274, "species_taxid": 2529274, "relation_to_type": "type", "validated": true, "ani": 79.2209, "matched_fragments": 481, "total_fragments": 1726, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobacterium corticibacter", "strain": "strain=2c-3", "accession": "GCA_003076635.1", "taxid": 2171749, "species_taxid": 2171749, "relation_to_type": "type", "validated": true, "ani": 76.8275, "matched_fragments": 50, "total_fragments": 1726, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingobacterium chungjuense", "strain": "strain=IMCC25678", "accession": "GCA_011316935.1", "taxid": 2675553, "species_taxid": 2675553, "relation_to_type": "type", "validated": true, "ani": 76.3704, "matched_fragments": 56, "total_fragments": 1726, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014306625.1", "gtdb_species": "s__Pedobacter sp014306625", "ani": 100.0, "matched_fragments": 1722, "total_fragments": 1726, "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_003173575.1", "gtdb_species": "s__Pedobacter paludis", "ani": 85.0143, "matched_fragments": 1192, 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