{ "type": "genome", "identifier": "GCF_016862375.1", "organism": "Paractinoplanes rishiriensis", "title": "Paractinoplanes rishiriensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Biological Resource Center, National Institute of Technology and Evaluation (NBRC)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016862375.1", "bioproject": "PRJNA224116", "biosample": "SAMD00230163", "wgs_master": "BOMV00000000.1", "refseq_category": "reference genome", "taxid": "1050105", "species_taxid": "1050105", "organism_name": "Paractinoplanes rishiriensis", "infraspecific_name": "strain=NBRC 108556", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/01/29", "asm_name": "ASM1686237v1", "asm_submitter": "Biological Resource Center, National Institute of Technology and Evaluation (NBRC)", "gbrs_paired_asm": "GCA_016862375.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/862/375/GCF_016862375.1_ASM1686237v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "10908275", "genome_size_ungapped": "10908275", "gc_percent": "71.000000", "replicon_count": "0", "scaffold_count": "182", "contig_count": "182", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016862375.1-RS_2024_08_04", "annotation_date": "2024-08-04", "total_gene_count": "10006", "protein_coding_gene_count": "9743", "non_coding_gene_count": "58", "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": [ "Paractinoplanes rishiriensis" ], "sample_taxid": [ "1050105" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan:Hokkaido, Rishiri Island" ], "sample_host_location_id": [], "data_size": "2.942 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)": "10908275", "Number of Sequences": "182", "Longest Sequences (bp)": "770527", "N50 (bp)": "145976", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.8", "Number of CDSs": "9926", "Average Protein Length": "327.3", "Coding Ratio (%)": "89.4", "Number of rRNAs": "2", "Number of tRNAs": "65", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinoplanes rishiriensis", "strain": "strain=NBRC 108556", "accession": "GCA_016862375.1", "taxid": 1050105, "species_taxid": 1050105, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 3531, "total_fragments": 3544, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinoplanes durhamensis", "strain": "strain=NBRC 14914", "accession": "GCA_016862175.1", "taxid": 113563, "species_taxid": 113563, "relation_to_type": "type", "validated": true, "ani": 83.0996, "matched_fragments": 1952, "total_fragments": 3544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes tereljensis", "strain": "strain=NBRC 105297", "accession": "GCA_016862435.1", "taxid": 571912, "species_taxid": 571912, "relation_to_type": "type", "validated": true, "ani": 83.0171, "matched_fragments": 1967, "total_fragments": 3544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes toevensis", "strain": "strain=NBRC 105298", "accession": "GCA_018332695.1", "taxid": 571911, 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"relation_to_type": "type", "validated": true, "ani": 81.9774, "matched_fragments": 1791, "total_fragments": 3544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes bogorensis", "strain": "strain=NBRC 110975", "accession": "GCA_018829635.1", "taxid": 1610840, "species_taxid": 1610840, "relation_to_type": "type", "validated": true, "ani": 81.7407, "matched_fragments": 1793, "total_fragments": 3544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes abujensis", "strain": "strain=DSM 45518", "accession": "GCA_014204895.1", "taxid": 882441, "species_taxid": 882441, "relation_to_type": "type", "validated": true, "ani": 81.6682, "matched_fragments": 1772, "total_fragments": 3544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes atraurantiacus", "strain": "strain=CGMCC 4.6857", "accession": "GCA_900215205.1", "taxid": 1036182, "species_taxid": 1036182, "relation_to_type": "type", "validated": true, "ani": 81.6476, "matched_fragments": 1849, "total_fragments": 3544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes teichomyceticus", "strain": "strain=ATCC 31121", "accession": "GCA_003711105.1", "taxid": 1867, "species_taxid": 1867, "relation_to_type": "type", "validated": true, "ani": 81.1356, "matched_fragments": 1544, "total_fragments": 3544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes teichomyceticus", "strain": "strain=NBRC 13999", "accession": "GCA_016862415.1", "taxid": 1867, "species_taxid": 1867, "relation_to_type": "type", "validated": true, "ani": 81.1279, "matched_fragments": 1497, "total_fragments": 3544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes octamycinicus", "strain": "strain=DSM 45809", "accession": "GCA_014205225.1", "taxid": 135948, "species_taxid": 135948, "relation_to_type": "type", "validated": true, "ani": 81.0803, 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}, { "organism_name": "Micromonospora ferruginea", "strain": "strain=28ISP2-46", "accession": "GCA_013694245.1", "taxid": 2749844, "species_taxid": 2749844, "relation_to_type": "type", "validated": true, "ani": 78.8739, "matched_fragments": 1197, "total_fragments": 3544, "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": 78.8228, "matched_fragments": 1021, "total_fragments": 3544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora palomenae", "strain": "strain=DSM 102131", "accession": "GCA_007829925.1", "taxid": 1461247, "species_taxid": 1461247, "relation_to_type": "type", "validated": true, "ani": 78.7983, "matched_fragments": 1134, "total_fragments": 3544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora 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B-24845", "accession": "GCA_003385215.1", "taxid": 944492, "species_taxid": 944492, "relation_to_type": "type", "validated": true, "ani": 76.338, "matched_fragments": 751, "total_fragments": 3544, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016862375.1", "gtdb_species": "s__Actinoplanes rishiriensis", "ani": 100.0, "matched_fragments": 3531, "total_fragments": 3544, "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_016862175.1", "gtdb_species": "s__Actinoplanes durhamensis", "ani": 83.0991, "matched_fragments": 1952, "total_fragments": 3544, 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