{ "type": "genome", "identifier": "GCF_004564375.1", "organism": "Nocardioides euryhalodurans", "title": "Nocardioides euryhalodurans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chungnam National University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004564375.1", "bioproject": "PRJNA224116", "biosample": "SAMN10923273", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2518370", "species_taxid": "2518370", "organism_name": "Nocardioides euryhalodurans", "infraspecific_name": "strain=MMS17-SY117", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/04/02", "asm_name": "ASM456437v1", "asm_submitter": "Chungnam National University", "gbrs_paired_asm": "GCA_004564375.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/564/375/GCF_004564375.1_ASM456437v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4017744", "genome_size_ungapped": "4017744", "gc_percent": "72.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004564375.1-RS_2024_04_22", "annotation_date": "2024-04-22", "total_gene_count": "3969", "protein_coding_gene_count": "3901", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-04-02", "dateModified": "2019-04-02", "datePublished": "2019-04-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Nocardioides euryhalodurans" ], "sample_taxid": [ "2518370" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Seonyu island" ], "sample_host_location_id": [], "data_size": "1.058 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)": "4017744", "Number of Sequences": "1", "Longest Sequences (bp)": "4017744", "N50 (bp)": "4017744", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.2", "Number of CDSs": "3933", "Average Protein Length": "318.8", "Coding Ratio (%)": "93.6", "Number of rRNAs": "6", "Number of tRNAs": "49", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nocardioides euryhalodurans", "strain": "strain=MMS17-SY117", "accession": "GCA_004564375.1", "taxid": 2518370, "species_taxid": 2518370, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1339, "total_fragments": 1339, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nocardioides coralli", "strain": "strain=SCSIO 67246", "accession": "GCA_019880385.1", "taxid": 2872154, "species_taxid": 2872154, "relation_to_type": "type", "validated": true, "ani": 82.6523, "matched_fragments": 781, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides ginsengisegetis", "strain": "strain=DSM 21349", "accession": "GCA_014138045.1", "taxid": 661491, "species_taxid": 661491, "relation_to_type": "type", "validated": true, "ani": 81.7757, "matched_fragments": 740, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides luti", "strain": "strain=KIGAM211", "accession": "GCA_014212315.1", "taxid": 2761101, "species_taxid": 2761101, "relation_to_type": "type", "validated": true, "ani": 81.5889, "matched_fragments": 736, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides ungokensis", "strain": "strain=LMG 28591", "accession": "GCA_013466985.1", "taxid": 1643322, "species_taxid": 1643322, "relation_to_type": "type", "validated": true, "ani": 81.4216, "matched_fragments": 774, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides panaciterrulae", "strain": "strain=DSM 21350", "accession": "GCA_013409645.1", "taxid": 661492, "species_taxid": 661492, "relation_to_type": "type", "validated": true, "ani": 81.2848, "matched_fragments": 747, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides sediminis", "strain": "strain=KCTC 19271", "accession": "GCA_003047295.1", "taxid": 433648, "species_taxid": 433648, "relation_to_type": "type", "validated": true, "ani": 81.2771, "matched_fragments": 728, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides kribbensis", "strain": "strain=DSM 16314", "accession": "GCA_015070375.1", "taxid": 305517, "species_taxid": 305517, "relation_to_type": "type", "validated": true, "ani": 81.0933, "matched_fragments": 702, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides marinisabuli", "strain": "strain=DSM 18965", "accession": "GCA_013409965.1", "taxid": 419476, "species_taxid": 419476, "relation_to_type": "type", "validated": true, "ani": 81.0291, "matched_fragments": 748, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides lacusdianchii", "strain": "strain=JXJ CY 38", "accession": "GCA_020102855.1", "taxid": 2783664, "species_taxid": 2783664, "relation_to_type": "type", "validated": true, "ani": 80.9071, "matched_fragments": 716, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides deserti", "strain": "strain=CGMCC 4.7183", "accession": "GCA_014646035.1", "taxid": 1588644, "species_taxid": 1588644, "relation_to_type": "type", "validated": true, "ani": 80.8667, "matched_fragments": 706, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides guangzhouensis", "strain": "strain=130", "accession": "GCA_004519545.1", "taxid": 2497878, "species_taxid": 2497878, "relation_to_type": "type", "validated": true, "ani": 80.8621, "matched_fragments": 752, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides currus", "strain": "strain=IB-3", "accession": "GCA_003057875.1", "taxid": 2133958, "species_taxid": 2133958, "relation_to_type": "type", "validated": true, "ani": 80.7275, "matched_fragments": 709, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides hwasunensis", "strain": "strain=19197", "accession": "GCA_014779665.1", "taxid": 397258, "species_taxid": 397258, "relation_to_type": "type", "validated": true, "ani": 80.6759, "matched_fragments": 701, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides perillae", "strain": "strain=DSM 24552", "accession": "GCA_013409425.1", "taxid": 1119534, "species_taxid": 1119534, "relation_to_type": "type", "validated": true, "ani": 80.6657, "matched_fragments": 692, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides dokdonensis", "strain": "strain=FR1436", "accession": "GCA_001653335.1", "taxid": 450734, "species_taxid": 450734, "relation_to_type": "type", "validated": true, "ani": 80.5793, "matched_fragments": 672, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides anomalus", "strain": "strain=HKS04", "accession": "GCA_011046535.1", "taxid": 2712223, "species_taxid": 2712223, "relation_to_type": "type", "validated": true, "ani": 80.5284, "matched_fragments": 729, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides islandensis", "strain": "strain=KCTC 19275", "accession": "GCA_015352455.1", "taxid": 433663, "species_taxid": 433663, "relation_to_type": "type", "validated": true, "ani": 80.4538, "matched_fragments": 709, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides stalactiti", "strain": "strain=1.0914", "accession": "GCA_014180715.1", "taxid": 2755356, "species_taxid": 2755356, "relation_to_type": "type", "validated": true, "ani": 80.2549, "matched_fragments": 586, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides humilatus", "strain": "strain=BN130099", "accession": "GCA_008373755.1", "taxid": 2607660, "species_taxid": 2607660, "relation_to_type": "type", "validated": true, "ani": 80.062, "matched_fragments": 580, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides sambongensis", "strain": "strain=KUDC 5002", "accession": "GCA_006494815.1", "taxid": 2589074, "species_taxid": 2589074, "relation_to_type": "type", "validated": true, "ani": 79.9024, "matched_fragments": 596, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides immobilis", "strain": "strain=CCTCC AB 2017083", "accession": "GCA_003515065.1", "taxid": 2049295, "species_taxid": 2049295, "relation_to_type": "type", "validated": true, "ani": 79.7813, "matched_fragments": 672, "total_fragments": 1339, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004564375.1", "gtdb_species": "s__Nocardioides euryhalodurans", "ani": 100.0, "matched_fragments": 1339, "total_fragments": 1339, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "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_014138045.1", "gtdb_species": "s__Nocardioides ginsengisegetis", "ani": 81.7816, "matched_fragments": 739, "total_fragments": 1339, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.18", "min_intra_species_ani": "96.18", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.84", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014212315.1", "gtdb_species": "s__Nocardioides luti", "ani": 81.566, "matched_fragments": 739, "total_fragments": 1339, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "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_013466985.1", "gtdb_species": "s__Nocardioides ungokensis", "ani": 81.4855, "matched_fragments": 769, "total_fragments": 1339, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "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_013409645.1", "gtdb_species": "s__Nocardioides panaciterrulae", "ani": 81.3175, "matched_fragments": 743, "total_fragments": 1339, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "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_013177455.1", "gtdb_species": "s__Nocardioides sp013177455", "ani": 81.3048, "matched_fragments": 731, "total_fragments": 1339, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.28", "min_intra_species_ani": "98.92", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002117935.1", "gtdb_species": "s__Nocardioides sp002117935", "ani": 81.3032, "matched_fragments": 712, "total_fragments": 1339, "gtdb_taxonomy": 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