{ "type": "genome", "identifier": "GCF_014648415.1", "organism": "Actinokineospora fastidiosa", "title": "Actinokineospora fastidiosa", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014648415.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245342", "wgs_master": "BMRB00000000.1", "refseq_category": "reference genome", "taxid": "1816", "species_taxid": "1816", "organism_name": "Actinokineospora fastidiosa", "infraspecific_name": "strain=JCM 3276", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1464841v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014648415.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/648/415/GCF_014648415.1_ASM1464841v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7042850", "genome_size_ungapped": "7042821", "gc_percent": "72.500000", "replicon_count": "0", "scaffold_count": "29", "contig_count": "29", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014648415.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "6502", "protein_coding_gene_count": "6385", "non_coding_gene_count": "64", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-12", "dateModified": "2020-09-12", "datePublished": "2020-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinokineospora fastidiosa" ], "sample_taxid": [ "1816" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.864 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)": "7042850", "Number of Sequences": "29", "Longest Sequences (bp)": "2105053", "N50 (bp)": "1923813", "Gap Ratio (%)": "0.000412", "GCcontent (%)": "72.5", "Number of CDSs": "6541", "Average Protein Length": "327.7", "Coding Ratio (%)": "91.3", "Number of rRNAs": "3", "Number of tRNAs": "63", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinokineospora fastidiosa", "strain": "strain=JCM 3276", "accession": "GCA_014648415.1", "taxid": 1816, "species_taxid": 1816, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2338, "total_fragments": 2338, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinokineospora iranica", "strain": "strain=IBRC-M 10403", "accession": "GCA_900101685.1", "taxid": 1271860, "species_taxid": 1271860, "relation_to_type": "type", "validated": true, "ani": 81.3868, "matched_fragments": 1130, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora spheciospongiae", "strain": "strain=EG49", "accession": "GCA_000564855.1", "taxid": 909613, "species_taxid": 909613, "relation_to_type": "type", "validated": true, "ani": 81.333, "matched_fragments": 1160, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora terrae", "strain": "strain=DSM 44260", "accession": "GCA_900111175.1", "taxid": 155974, "species_taxid": 155974, "relation_to_type": "type", "validated": true, "ani": 81.2415, "matched_fragments": 1149, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora globicatena", "strain": "strain=DSM 44256", "accession": "GCA_024171945.1", "taxid": 103729, "species_taxid": 103729, "relation_to_type": "type", "validated": true, "ani": 81.1269, "matched_fragments": 1146, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora pegani", "strain": "strain=TRM 65233", "accession": "GCA_009745975.1", "taxid": 2654637, "species_taxid": 2654637, "relation_to_type": "type", "validated": true, "ani": 81.1109, "matched_fragments": 1143, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora cianjurensis", "strain": "strain=DSM 45657", "accession": "GCA_003663795.1", "taxid": 585224, "species_taxid": 585224, "relation_to_type": "type", "validated": true, "ani": 81.1017, "matched_fragments": 1132, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora baliensis", "strain": "strain=DSM 45656", "accession": "GCA_016907695.1", "taxid": 547056, "species_taxid": 547056, "relation_to_type": "type", "validated": true, "ani": 81.0753, "matched_fragments": 1125, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora alba", "strain": "strain=DSM 45114", "accession": "GCA_004362515.1", "taxid": 504798, "species_taxid": 504798, "relation_to_type": "type", "validated": true, "ani": 81.0661, "matched_fragments": 1189, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora xionganensis", "strain": "strain=HBU206404", "accession": "GCA_014323725.1", "taxid": 2684470, "species_taxid": 2684470, "relation_to_type": "type", "validated": true, "ani": 81.0358, "matched_fragments": 1129, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora bangkokensis", "strain": "strain=44EHW", "accession": "GCA_001940455.1", "taxid": 1193682, "species_taxid": 1193682, "relation_to_type": "type", "validated": true, "ani": 80.8667, "matched_fragments": 1242, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora diospyrosa", "strain": "strain=DSM 44255", "accession": "GCA_024171925.1", "taxid": 103728, "species_taxid": 103728, "relation_to_type": "type", "validated": true, "ani": 80.8047, "matched_fragments": 1147, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora enzanensis", "strain": "strain=DSM 44649", "accession": "GCA_000374445.1", "taxid": 155975, "species_taxid": 155975, "relation_to_type": "type", "validated": true, "ani": 80.7644, "matched_fragments": 1146, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharothrix variisporea", "strain": "strain=DSM 43911", "accession": "GCA_003634995.1", "taxid": 543527, "species_taxid": 543527, "relation_to_type": "type", "validated": true, "ani": 79.1843, "matched_fragments": 1138, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharothrix texasensis", "strain": "strain=DSM 44231", "accession": "GCA_003752005.1", "taxid": 103734, "species_taxid": 103734, "relation_to_type": "type", "validated": true, "ani": 79.1451, "matched_fragments": 1151, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharothrix deserti", "strain": "strain=BMP B8144", "accession": "GCA_009769385.1", "taxid": 2593674, "species_taxid": 2593674, "relation_to_type": "type", "validated": true, "ani": 79.0424, "matched_fragments": 1099, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis arida", "strain": "strain=DSM 45648", "accession": "GCA_004365925.1", "taxid": 587909, "species_taxid": 587909, "relation_to_type": "type", "validated": true, "ani": 78.7832, "matched_fragments": 909, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis arida", "strain": "strain=CGMCC 4.5579", "accession": "GCA_900115565.1", "taxid": 587909, "species_taxid": 587909, "relation_to_type": "type", "validated": true, "ani": 78.7459, "matched_fragments": 908, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentzea tibetensis", "strain": "strain=FXJ1.1311", "accession": "GCA_007845675.1", "taxid": 2591470, "species_taxid": 2591470, "relation_to_type": "type", "validated": true, "ani": 78.4803, "matched_fragments": 985, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis acidiphila", "strain": "strain=KCTC 39523", "accession": "GCA_021391495.1", "taxid": 715473, "species_taxid": 715473, "relation_to_type": "type", "validated": true, "ani": 78.3436, "matched_fragments": 871, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prauserella aidingensis", "strain": "strain=DSM 45266", "accession": "GCA_024171865.1", "taxid": 387890, "species_taxid": 387890, "relation_to_type": "type", "validated": true, "ani": 77.8011, "matched_fragments": 691, "total_fragments": 2338, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014648415.1", "gtdb_species": "s__Actinokineospora fastidiosa", "ani": 100.0, "matched_fragments": 2338, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinokineospora", "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_900101685.1", "gtdb_species": "s__Actinokineospora iranica", "ani": 81.3596, "matched_fragments": 1135, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinokineospora", "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_900111175.1", "gtdb_species": "s__Actinokineospora terrae", "ani": 81.2616, "matched_fragments": 1146, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinokineospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.61", "min_intra_species_ani": "95.61", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003182415.1", "gtdb_species": "s__Actinokineospora mzabensis", "ani": 81.1164, "matched_fragments": 1224, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinokineospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.96", "min_intra_species_ani": "98.96", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009745975.1", "gtdb_species": "s__Actinokineospora pegani", "ani": 81.1156, "matched_fragments": 1142, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinokineospora", "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_016907695.1", "gtdb_species": "s__Actinokineospora baliensis", "ani": 81.0831, "matched_fragments": 1124, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinokineospora", "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_004362515.1", "gtdb_species": "s__Actinokineospora alba", "ani": 81.0579, "matched_fragments": 1190, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinokineospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002934265.1", "gtdb_species": "s__Actinokineospora auranticolor", "ani": 80.9321, "matched_fragments": 1208, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinokineospora", "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_001940455.1", "gtdb_species": "s__Actinokineospora bangkokensis", "ani": 80.8875, "matched_fragments": 1237, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinokineospora", "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_000374445.1", "gtdb_species": "s__Actinokineospora enzanensis", "ani": 80.7527, "matched_fragments": 1147, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinokineospora", "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_003634995.1", "gtdb_species": "s__Actinosynnema variisporeum", "ani": 79.1716, "matched_fragments": 1138, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinosynnema", "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_001280085.1", "gtdb_species": "s__Actinosynnema sp001280085", "ani": 79.1705, "matched_fragments": 1186, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinosynnema", "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_003752005.1", "gtdb_species": "s__Actinosynnema texasense", "ani": 79.1215, "matched_fragments": 1158, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinosynnema", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.51", "min_intra_species_ani": "98.51", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009498035.1", "gtdb_species": "s__Actinosynnema syringae", "ani": 79.1115, "matched_fragments": 1267, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinosynnema", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_006716745.1", "gtdb_species": "s__Actinosynnema saharense", "ani": 79.1095, "matched_fragments": 1175, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinosynnema", "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_009769385.1", "gtdb_species": "s__Actinosynnema deserti", "ani": 79.0539, "matched_fragments": 1096, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinosynnema", "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_900115565.1", "gtdb_species": "s__Yuhushiella arida", "ani": 78.7693, "matched_fragments": 904, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Yuhushiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_005405885.1", "gtdb_species": "s__Gandjariella thermophila", "ani": 78.5534, "matched_fragments": 802, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Gandjariella", "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_017876755.1", "gtdb_species": "s__Crossiella equi", "ani": 78.407, "matched_fragments": 1086, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Crossiella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900119165.1", "gtdb_species": "s__Amycolatopsis australiensis", "ani": 78.2175, "matched_fragments": 1029, "total_fragments": 2338, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.176, "cell_length": null, "doubling_h": null, "growth_tmp": 27.0, "optimum_tmp": 28.2, "optimum_ph": 7.25, "genome_size": 7789263.312, "gc_content": 71.266, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 1.0, "motility": 0.666, "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": 0.8, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.2, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Actinokineospora", "fastidiosa" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }