{ "type": "genome", "identifier": "GCF_016862275.1", "organism": "Actinoplanes nipponensis", "title": "Actinoplanes nipponensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Biological Resource Center, National Institute of Technology and Evaluation (NBRC)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016862275.1", "bioproject": "PRJNA224116", "biosample": "SAMD00229070", "wgs_master": "BOMQ00000000.1", "refseq_category": "reference genome", "taxid": "135950", "species_taxid": "135950", "organism_name": "Actinoplanes nipponensis", "infraspecific_name": "strain=NBRC 14063", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/01/29", "asm_name": "ASM1686227v1", "asm_submitter": "Biological Resource Center, National Institute of Technology and Evaluation (NBRC)", "gbrs_paired_asm": "GCA_016862275.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/862/275/GCF_016862275.1_ASM1686227v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8952901", "genome_size_ungapped": "8952901", "gc_percent": "73.000000", "replicon_count": "0", "scaffold_count": "123", "contig_count": "123", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016862275.1-RS_2024_08_04", "annotation_date": "2024-08-04", "total_gene_count": "8203", "protein_coding_gene_count": "7991", "non_coding_gene_count": "75", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-01-29", "dateModified": "2021-01-29", "datePublished": "2021-01-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinoplanes nipponensis" ], "sample_taxid": [ "135950" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "2.372 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "8952901", "Number of Sequences": "123", "Longest Sequences (bp)": "603825", "N50 (bp)": "134006", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "73.1", "Number of CDSs": "8132", "Average Protein Length": "328.7", "Coding Ratio (%)": "89.6", "Number of rRNAs": "3", "Number of tRNAs": "96", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinoplanes nipponensis", "strain": "strain=NBRC 14063", "accession": "GCA_016862275.1", "taxid": 135950, "species_taxid": 135950, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora phytophila", "strain": "strain=DSM 105363", "accession": "GCA_023656545.1", "taxid": 709888, "species_taxid": 709888, "relation_to_type": "type", "validated": true, "ani": 79.7251, "matched_fragments": 911, "total_fragments": 2926, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora acroterricola", "strain": "strain=5R2A7", "accession": "GCA_003172955.1", "taxid": 2202421, "species_taxid": 2202421, "relation_to_type": "type", "validated": true, "ani": 79.5978, "matched_fragments": 1075, "total_fragments": 2926, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora ferruginea", "strain": "strain=28ISP2-46", "accession": "GCA_013694245.1", "taxid": 2749844, "species_taxid": 2749844, "relation_to_type": "type", "validated": true, "ani": 79.5197, "matched_fragments": 1249, "total_fragments": 2926, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora humida", "strain": "strain=MMS20-R1-14", "accession": "GCA_016901255.1", "taxid": 2809018, "species_taxid": 2809018, "relation_to_type": "type", "validated": true, "ani": 79.3581, "matched_fragments": 1250, "total_fragments": 2926, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016862275.1", "gtdb_species": "s__Actinoplanes nipponensis", "ani": 100.0, "matched_fragments": 2916, "total_fragments": 2926, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "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_018332655.1", "gtdb_species": 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0.333, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Actinoplanes", "nipponensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }