{ "type": "genome", "identifier": "GCF_003860405.1", "organism": "Nakamurella antarctica", "title": "Nakamurella antarctica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "wuhan university", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003860405.1", "bioproject": "PRJNA224116", "biosample": "SAMN10474290", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1902245", "species_taxid": "1902245", "organism_name": "Nakamurella antarctica", "infraspecific_name": "strain=S14-144", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/04", "asm_name": "ASM386040v1", "asm_submitter": "wuhan university", "gbrs_paired_asm": "GCA_003860405.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/860/405/GCF_003860405.1_ASM386040v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3377955", "genome_size_ungapped": "3377955", "gc_percent": "61.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003860405.1-RS_2024_04_05", "annotation_date": "2024-04-05", "total_gene_count": "3107", "protein_coding_gene_count": "3007", "non_coding_gene_count": "59", "pubmed_id": "31665101" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-04", "dateModified": "2018-12-04", "datePublished": "2018-12-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Nakamurella antarctica" ], "sample_taxid": [ "1902245" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "0.950 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 99.54, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3377955", "Number of Sequences": "1", "Longest Sequences (bp)": "3377955", "N50 (bp)": "3377955", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "61.6", "Number of CDSs": "3110", "Average Protein Length": "316.2", "Coding Ratio (%)": "87.3", "Number of rRNAs": "9", "Number of tRNAs": "48", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nakamurella antarctica", "strain": "strain=S14-144", "accession": "GCA_003860405.1", "taxid": 1902245, "species_taxid": 1902245, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1125, "total_fragments": 1125, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Dietzia lutea", "strain": "strain=YIM 80766", "accession": "GCA_003096075.1", "taxid": 546160, "species_taxid": 546160, "relation_to_type": "type", "validated": true, "ani": 77.2919, "matched_fragments": 53, "total_fragments": 1125, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium helvum", "strain": "strain=JCM 30396", "accession": "GCA_010731895.1", "taxid": 1534349, "species_taxid": 1534349, "relation_to_type": "type", "validated": true, "ani": 77.1041, "matched_fragments": 61, "total_fragments": 1125, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nakamurella deserti", "strain": "strain=12Sc4-1", "accession": "GCA_003260015.1", "taxid": 2164074, "species_taxid": 2164074, "relation_to_type": "type", "validated": true, "ani": 77.0631, "matched_fragments": 198, "total_fragments": 1125, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharopolyspora phatthalungensis", "strain": "strain=DSM 45584", "accession": "GCA_014203395.1", "taxid": 664693, "species_taxid": 664693, "relation_to_type": "type", "validated": true, "ani": 76.8989, "matched_fragments": 81, "total_fragments": 1125, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis alba", "strain": "strain=DSM 44262", "accession": "GCA_000384215.1", "taxid": 76020, "species_taxid": 76020, "relation_to_type": "type", "validated": true, "ani": 76.8598, "matched_fragments": 74, "total_fragments": 1125, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium cosmeticum", "strain": "strain=DSM 44829", "accession": "GCA_000613185.1", "taxid": 258533, "species_taxid": 258533, "relation_to_type": "type", "validated": true, "ani": 76.8584, "matched_fragments": 73, "total_fragments": 1125, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nakamurella leprariae", "strain": "strain=YIM 132084", "accession": "GCA_016918035.1", "taxid": 2803911, "species_taxid": 2803911, "relation_to_type": "type", "validated": true, "ani": 76.7551, "matched_fragments": 113, "total_fragments": 1125, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nakamurella flavida", "strain": "strain=KCTC 19127", "accession": "GCA_016918095.1", "taxid": 363630, "species_taxid": 363630, "relation_to_type": "type", "validated": true, "ani": 76.6662, "matched_fragments": 134, "total_fragments": 1125, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nakamurella flava", "strain": "strain=N5BH11", "accession": "GCA_005298075.1", "taxid": 2576308, "species_taxid": 2576308, "relation_to_type": "type", "validated": true, "ani": 76.56, "matched_fragments": 121, "total_fragments": 1125, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycolicibacterium cosmeticum", "strain": "strain=DSM 44829", "accession": "GCA_005670675.1", "taxid": 258533, 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"matched_fragments": 89, "total_fragments": 1125, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis orientalis", "strain": "strain=KCTC 9412", "accession": "GCA_000478275.1", "taxid": 31958, "species_taxid": 31958, "relation_to_type": "type", "validated": true, "ani": 75.7556, "matched_fragments": 76, "total_fragments": 1125, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.54, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003860405.1", "gtdb_species": "s__Nakamurella sp003860405", "ani": 100.0, "matched_fragments": 1125, "total_fragments": 1125, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Nakamurellaceae;g__Nakamurella", "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": 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"optimum_tmp": 25.0, "optimum_ph": 6.75, "genome_size": 5631676.133, "gc_content": 70.9, "coding_genes": 5178.667, "rRNA16S_genes": 2.0, "tRNA_genes": 47.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.333, "coccus_cell_shape": 0.666, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Nakamurella", "antarctica" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }