{ "type": "genome", "identifier": "GCF_016862855.1", "organism": "Phytomonospora endophytica", "title": "Phytomonospora endophytica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Biological Resource Center, National Institute of Technology and Evaluation (NBRC)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016862855.1", "bioproject": "PRJNA224116", "biosample": "SAMD00231358", "wgs_master": "BONT00000000.1", "refseq_category": "reference genome", "taxid": "714109", "species_taxid": "714109", "organism_name": "Phytomonospora endophytica", "infraspecific_name": "strain=NBRC 110449", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/01/29", "asm_name": "ASM1686285v1", "asm_submitter": "Biological Resource Center, National Institute of Technology and Evaluation (NBRC)", "gbrs_paired_asm": "GCA_016862855.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/862/855/GCF_016862855.1_ASM1686285v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8302183", "genome_size_ungapped": "8302183", "gc_percent": "71.000000", "replicon_count": "0", "scaffold_count": "126", "contig_count": "126", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016862855.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "7829", "protein_coding_gene_count": "7691", "non_coding_gene_count": "56", "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": [ "Phytomonospora endophytica" ], "sample_taxid": [ "714109" ], "sample_host_organism": [ "Artemisia annua" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Yunnan, Kunming" ], "sample_host_location_id": [], "data_size": "2.234 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)": "8302183", "Number of Sequences": "126", "Longest Sequences (bp)": "417918", "N50 (bp)": "116978", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.8", "Number of CDSs": "7891", "Average Protein Length": "315.8", "Coding Ratio (%)": "90.1", "Number of rRNAs": "2", "Number of tRNAs": "63", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Phytomonospora endophytica", "strain": "strain=YIM 65646", "accession": "GCA_014202425.1", "taxid": 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"type", "validated": true, "ani": 77.2491, "matched_fragments": 641, "total_fragments": 2704, "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": 76.9661, "matched_fragments": 609, "total_fragments": 2704, "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": 76.9117, "matched_fragments": 720, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Glycomyces artemisiae", "strain": "strain=CGMCC 4.7067", "accession": "GCA_003002955.1", "taxid": 1076443, "species_taxid": 1076443, "relation_to_type": "type", "validated": true, "ani": 76.8694, "matched_fragments": 755, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora polyrhachis", "strain": "strain=DSM 45886", "accession": "GCA_014203835.1", "taxid": 1282883, "species_taxid": 1282883, "relation_to_type": "type", "validated": true, "ani": 76.8219, "matched_fragments": 501, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Catellatospora chokoriensis", "strain": "strain=2-25(1)", "accession": "GCA_011297315.1", "taxid": 310353, "species_taxid": 310353, "relation_to_type": "type", "validated": true, "ani": 76.8098, "matched_fragments": 803, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora kangleipakensis", "strain": "strain=DSM 45612", "accession": "GCA_004217615.1", "taxid": 1077942, "species_taxid": 1077942, "relation_to_type": "type", "validated": true, "ani": 76.7802, "matched_fragments": 698, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Catellatospora citrea", "strain": "strain=NBRC 14495", "accession": "GCA_016862615.1", "taxid": 53366, "species_taxid": 53366, "relation_to_type": "type", "validated": true, "ani": 76.7729, "matched_fragments": 827, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Catellatospora tritici", "strain": "strain=NEAU-YM18", "accession": "GCA_019083965.1", "taxid": 2851566, "species_taxid": 2851566, "relation_to_type": "type", "validated": true, "ani": 76.7703, "matched_fragments": 789, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Catellatospora sichuanensis", "strain": "strain=H14505", "accession": "GCA_007483665.1", "taxid": 1969805, "species_taxid": 1969805, "relation_to_type": "type", "validated": true, "ani": 76.7649, "matched_fragments": 794, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Catellatospora vulcania", "strain": "strain=NEAU-JM1", "accession": "GCA_009720385.1", "taxid": 1460450, "species_taxid": 1460450, "relation_to_type": "type", "validated": true, "ani": 76.7507, "matched_fragments": 806, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes nipponensis", "strain": "strain=NBRC 14063", "accession": "GCA_016862275.1", "taxid": 135950, "species_taxid": 135950, "relation_to_type": "type", "validated": true, "ani": 76.6414, "matched_fragments": 771, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pilimelia anulata", "strain": "strain=JCM 3090", "accession": "GCA_014647895.1", "taxid": 53371, "species_taxid": 53371, "relation_to_type": "type", "validated": true, "ani": 76.5645, "matched_fragments": 631, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phytohabitans houttuyneae", "strain": "strain=NBRC 108639", "accession": "GCA_011764425.1", "taxid": 1076126, "species_taxid": 1076126, "relation_to_type": "type", "validated": true, "ani": 76.4015, "matched_fragments": 841, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Virgisporangium aurantiacum", "strain": "strain=NBRC 16421", "accession": "GCA_016863635.1", "taxid": 175570, "species_taxid": 175570, "relation_to_type": "type", "validated": true, "ani": 76.2668, "matched_fragments": 952, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes humidus", "strain": "strain=NBRC 14915", "accession": "GCA_016862215.1", "taxid": 113566, "species_taxid": 113566, "relation_to_type": "type", "validated": true, "ani": 76.243, "matched_fragments": 708, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura rubrisoli", "strain": "strain=H3C3", "accession": "GCA_004349215.1", "taxid": 2530368, "species_taxid": 2530368, "relation_to_type": "type", "validated": true, "ani": 75.864, "matched_fragments": 664, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis vancoresmycina", "strain": "strain=DSM 44592", "accession": "GCA_000388135.1", "taxid": 208444, "species_taxid": 208444, "relation_to_type": "type", "validated": true, "ani": 75.8532, "matched_fragments": 646, "total_fragments": 2704, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014202425.1", "gtdb_species": "s__Phytomonospora endophytica", "ani": 99.9987, "matched_fragments": 2703, "total_fragments": 2704, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Phytomonospora", "ani_circumscription_radius": 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