{ "type": "genome", "identifier": "GCF_001636295.1", "organism": "Isoptericola dokdonensis DS-3", "title": "Isoptericola dokdonensis DS-3", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Yonsei University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001636295.1", "bioproject": "PRJNA224116", "biosample": "SAMN04437027", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1300344", "species_taxid": "372663", "organism_name": "Isoptericola dokdonensis DS-3", "infraspecific_name": "strain=DS-3", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/05/03", "asm_name": "ASM163629v1", "asm_submitter": "Yonsei University", "gbrs_paired_asm": "GCA_001636295.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/636/295/GCF_001636295.1_ASM163629v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3826972", "genome_size_ungapped": "3826972", "gc_percent": "74.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-03-04", "total_gene_count": "3497", "protein_coding_gene_count": "3415", "non_coding_gene_count": "65", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-05-03", "dateModified": "2016-05-03", "datePublished": "2016-05-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Isoptericola dokdonensis DS-3" ], "sample_taxid": [ "1300344" ], "sample_host_organism": [ "not collected" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "0.995 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)": "3826972", "Number of Sequences": "1", "Longest Sequences (bp)": "3826972", "N50 (bp)": "3826972", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "73.8", "Number of CDSs": "3459", "Average Protein Length": "338.5", "Coding Ratio (%)": "91.8", "Number of rRNAs": "12", "Number of tRNAs": "61", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Isoptericola dokdonensis", "strain": "strain=DS-3", "accession": "GCA_001636295.1", "taxid": 372663, "species_taxid": 372663, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1275, "total_fragments": 1275, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Isoptericola jiangsuensis", "strain": "strain=DSM 21863", "accession": "GCA_002563715.1", "taxid": 548579, "species_taxid": 548579, "relation_to_type": "type", "validated": true, "ani": 88.5139, "matched_fragments": 1085, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Isoptericola chiayiensis", "strain": "strain=KCTC 19740", "accession": "GCA_013149805.1", "taxid": 579446, "species_taxid": 579446, "relation_to_type": "type", "validated": true, "ani": 83.2018, "matched_fragments": 879, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Isoptericola sediminis", "strain": "strain=JC619", "accession": "GCA_013085345.1", "taxid": 2733572, "species_taxid": 2733572, "relation_to_type": "type", "validated": true, "ani": 82.4011, "matched_fragments": 745, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Promicromonospora citrea", "strain": "strain=ATCC 15908", "accession": "GCA_013004695.1", "taxid": 43677, "species_taxid": 43677, "relation_to_type": "type", "validated": true, "ani": 80.157, "matched_fragments": 651, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulosimicrobium funkei", "strain": "strain=NBRC 104118", "accession": "GCA_001570825.1", "taxid": 264251, "species_taxid": 264251, "relation_to_type": "suspected-type", "validated": true, "ani": 80.1327, "matched_fragments": 691, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Promicromonospora sukumoe", "strain": "strain=DSM 44121", "accession": "GCA_014137995.1", "taxid": 88382, "species_taxid": 88382, "relation_to_type": "type", "validated": true, "ani": 80.0892, "matched_fragments": 735, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulosimicrobium funkei", "strain": "strain=JCM 14302", "accession": "GCA_004519295.1", "taxid": 264251, "species_taxid": 264251, "relation_to_type": "suspected-type", "validated": true, "ani": 80.0725, "matched_fragments": 717, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Promicromonospora citrea", "strain": "strain=JCM 3051", "accession": "GCA_014647735.1", "taxid": 43677, "species_taxid": 43677, "relation_to_type": "type", "validated": true, "ani": 80.0639, "matched_fragments": 701, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oerskovia turbata", "strain": "strain=JCM3160", "accession": "GCA_004121315.1", "taxid": 1713, "species_taxid": 1713, "relation_to_type": "type", "validated": true, "ani": 79.4371, "matched_fragments": 599, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oerskovia turbata", "strain": "strain=NRRL B-8019", "accession": "GCA_000718325.1", "taxid": 1713, "species_taxid": 1713, "relation_to_type": "type", "validated": true, "ani": 79.4087, "matched_fragments": 594, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oerskovia rustica", "strain": "strain=Sa4CUA1", "accession": "GCA_014836555.1", "taxid": 2762237, "species_taxid": 2762237, "relation_to_type": "type", "validated": true, "ani": 79.3345, "matched_fragments": 618, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Promicromonospora umidemergens", "strain": "strain=DSM 22081", "accession": "GCA_024171995.1", "taxid": 629679, "species_taxid": 629679, "relation_to_type": "type", "validated": true, "ani": 79.2496, "matched_fragments": 674, "total_fragments": 1275, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oerskovia merdavium", "strain": "strain=Sa2CUA9", "accession": "GCA_014836755.1", "taxid": 2762227, 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"s__Isoptericola dokdonensis", "ani": 100.0, "matched_fragments": 1275, "total_fragments": 1275, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Isoptericola", "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_002563715.1", "gtdb_species": "s__Isoptericola jiangsuensis", "ani": 88.5159, "matched_fragments": 1083, "total_fragments": 1275, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Isoptericola", "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_013149805.1", "gtdb_species": "s__Isoptericola 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82.4225, "matched_fragments": 743, "total_fragments": 1275, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Isoptericola", "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_000215105.1", "gtdb_species": "s__Isoptericola variabilis_A", "ani": 82.1895, "matched_fragments": 758, "total_fragments": 1275, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Isoptericola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.96", "min_intra_species_ani": "99.96", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_013149785.1", "gtdb_species": "s__Isoptericola halotolerans", "ani": 82.1807, 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