{ "type": "genome", "identifier": "GCF_002262875.1", "organism": "Amycolatopsis antarctica", "title": "Amycolatopsis antarctica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institute of Microbiology, CAS", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002262875.1", "bioproject": "PRJNA224116", "biosample": "SAMN07313103", "wgs_master": "NKYE00000000.1", "refseq_category": "reference genome", "taxid": "1854586", "species_taxid": "1854586", "organism_name": "Amycolatopsis antarctica", "infraspecific_name": "strain=AU-G6", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/08/22", "asm_name": "ASM226287v1", "asm_submitter": "Institute of Microbiology, CAS", "gbrs_paired_asm": "GCA_002262875.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/262/875/GCF_002262875.1_ASM226287v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6342753", "genome_size_ungapped": "6342753", "gc_percent": "70.500000", "replicon_count": "0", "scaffold_count": "64", "contig_count": "64", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002262875.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "5749", "protein_coding_gene_count": "5622", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-08-22", "dateModified": "2017-08-22", "datePublished": "2017-08-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Amycolatopsis antarctica" ], "sample_taxid": [ "1854586" ], "sample_host_organism": [ "Adenocystis utricularis" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica: King George Island" ], "sample_host_location_id": [], "data_size": "1.708 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.52, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "6342753", "Number of Sequences": "64", "Longest Sequences (bp)": "723703", "N50 (bp)": "357075", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.3", "Number of CDSs": "5745", "Average Protein Length": "325.7", "Coding Ratio (%)": "88.5", "Number of rRNAs": "4", "Number of tRNAs": "61", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Amycolatopsis albispora", "strain": "strain=WP1", "accession": "GCA_003312875.1", "taxid": 1804986, "species_taxid": 1804986, "relation_to_type": "type", "validated": true, "ani": 80.3071, "matched_fragments": 1097, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis nigrescens", "strain": "strain=CSC17Ta-90", "accession": "GCA_000384315.1", "taxid": 381445, "species_taxid": 381445, "relation_to_type": "type", "validated": true, "ani": 80.2982, "matched_fragments": 1092, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis magusensis", "strain": "strain=DSM 45510", "accession": "GCA_017875555.1", "taxid": 882444, "species_taxid": 882444, "relation_to_type": "type", "validated": true, "ani": 80.2169, "matched_fragments": 1086, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis anabasis", "strain": "strain=EGI 650086", "accession": "GCA_009765355.1", "taxid": 1840409, "species_taxid": 1840409, "relation_to_type": "type", "validated": true, "ani": 80.0548, "matched_fragments": 1087, "total_fragments": 2087, "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": 79.988, "matched_fragments": 934, "total_fragments": 2087, "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": 79.9793, "matched_fragments": 937, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis thermalba", "strain": "strain=NRRL B-24845", "accession": "GCA_003385215.1", "taxid": 944492, "species_taxid": 944492, "relation_to_type": "type", "validated": true, "ani": 79.8574, "matched_fragments": 893, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis methanolica", "strain": "strain=239", "accession": "GCA_000371885.1", "taxid": 1814, "species_taxid": 1814, "relation_to_type": "type", "validated": true, "ani": 79.7363, "matched_fragments": 905, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis methanolica", "strain": "strain=239", "accession": "GCA_000739085.1", "taxid": 1814, "species_taxid": 1814, "relation_to_type": "type", "validated": true, "ani": 79.7028, "matched_fragments": 925, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis aidingensis", "strain": "strain=YIM 96748", "accession": "GCA_018885265.1", "taxid": 2842453, "species_taxid": 2842453, "relation_to_type": "type", "validated": true, "ani": 79.6953, "matched_fragments": 961, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prauserella cavernicola", "strain": "strain=ASG 168", "accession": "GCA_016595675.1", "taxid": 2800127, "species_taxid": 2800127, "relation_to_type": "type", "validated": true, "ani": 79.6477, "matched_fragments": 956, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis palatopharyngis", "strain": "strain=DSM 44832", "accession": "GCA_003385185.1", "taxid": 187982, "species_taxid": 187982, "relation_to_type": "type", "validated": true, "ani": 79.6309, "matched_fragments": 860, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis marina", "strain": "strain=CGMCC 4.3568", "accession": "GCA_900111885.1", "taxid": 490629, "species_taxid": 490629, "relation_to_type": "type", "validated": true, "ani": 79.6115, "matched_fragments": 904, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis thermoflava", "strain": "strain=N1165", "accession": "GCA_000473265.1", "taxid": 84480, "species_taxid": 84480, "relation_to_type": "type", "validated": true, "ani": 79.5981, "matched_fragments": 964, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis saalfeldensis", "strain": "strain=DSM 44993", "accession": "GCA_900110575.1", "taxid": 394193, "species_taxid": 394193, "relation_to_type": "type", "validated": true, "ani": 79.5861, "matched_fragments": 1006, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis azurea", "strain": "strain=DSM 43854", "accession": "GCA_001995215.1", "taxid": 36819, "species_taxid": 36819, "relation_to_type": "type", "validated": true, "ani": 79.5748, "matched_fragments": 987, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis azurea", "strain": "strain=DSM 43854", "accession": "GCA_000340415.1", "taxid": 36819, "species_taxid": 36819, "relation_to_type": "type", "validated": true, "ani": 79.5702, "matched_fragments": 992, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis keratiniphila subsp. nogabecina", "strain": "strain=FH 1893", "accession": "GCA_001953855.1", "taxid": 208442, "species_taxid": 129921, "relation_to_type": "type", "validated": true, "ani": 79.5443, "matched_fragments": 985, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis sacchari", "strain": "strain=DSM 44468", "accession": "GCA_900114035.1", "taxid": 115433, "species_taxid": 115433, "relation_to_type": "type", "validated": true, "ani": 79.5307, "matched_fragments": 874, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis endophytica", "strain": "strain=DSM 104006", "accession": "GCA_013410405.1", "taxid": 860233, "species_taxid": 860233, "relation_to_type": "type", "validated": true, "ani": 79.5247, "matched_fragments": 887, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis keratiniphila subsp. keratiniphila", "strain": "strain=DSM 44409", "accession": "GCA_001620365.2", "taxid": 227715, "species_taxid": 129921, "relation_to_type": "type", "validated": true, "ani": 79.4941, "matched_fragments": 978, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis xylanica", "strain": "strain=CPCC 202699", "accession": "GCA_900107045.1", "taxid": 589385, "species_taxid": 589385, "relation_to_type": "type", "validated": true, "ani": 79.4378, "matched_fragments": 987, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis camponoti", "strain": "strain=A23", "accession": "GCA_902497555.1", "taxid": 2606593, "species_taxid": 2606593, "relation_to_type": "type", "validated": true, "ani": 79.3878, "matched_fragments": 1031, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis kentuckyensis", "strain": "strain=NRRL B-24129", "accession": "GCA_002155975.1", "taxid": 218823, "species_taxid": 218823, "relation_to_type": "type", "validated": true, "ani": 79.3664, "matched_fragments": 937, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis acidicola", "strain": "strain=K81G1", "accession": "GCA_007713735.2", "taxid": 2596893, "species_taxid": 2596893, "relation_to_type": "type", "validated": true, "ani": 79.363, "matched_fragments": 859, "total_fragments": 2087, "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": 78.3358, "matched_fragments": 688, "total_fragments": 2087, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.52, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002262875.1", "gtdb_species": "s__Amycolatopsis antarctica", "ani": 100.0, "matched_fragments": 2084, "total_fragments": 2087, "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": "conclusive" }, { "accession": "GCF_000384315.1", "gtdb_species": "s__Amycolatopsis nigrescens", "ani": 80.2998, "matched_fragments": 1091, "total_fragments": 2087, "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": "-" }, { "accession": "GCF_003312875.1", "gtdb_species": "s__Amycolatopsis albispora", "ani": 80.2903, "matched_fragments": 1103, "total_fragments": 2087, "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": "-" }, { "accession": "GCF_009429145.1", "gtdb_species": "s__Amycolatopsis sp009429145", "ani": 80.2267, "matched_fragments": 1110, "total_fragments": 2087, "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": "-" }, { "accession": "GCF_009765355.1", "gtdb_species": "s__Amycolatopsis anabasis", "ani": 80.098, "matched_fragments": 1079, "total_fragments": 2087, "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": "-" }, { "accession": "GCF_900115565.1", "gtdb_species": "s__Yuhushiella arida", "ani": 79.9857, "matched_fragments": 935, "total_fragments": 2087, "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_016464705.1", "gtdb_species": "s__Saccharomonospora sp016464705", "ani": 79.8611, "matched_fragments": 899, "total_fragments": 2087, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Saccharomonospora", "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_000231075.2", "gtdb_species": "s__Amycolatopsis sp000231075", "ani": 79.752, "matched_fragments": 953, "total_fragments": 2087, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "ani_circumscription_radius": 95.4849, "mean_intra_species_ani": "N/A", 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"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_003385185.1", "gtdb_species": "s__Amycolatopsis_D palatopharyngis", "ani": 79.6353, "matched_fragments": 860, "total_fragments": 2087, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis_D", "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_900110575.1", "gtdb_species": "s__Amycolatopsis saalfeldensis", "ani": 79.622, "matched_fragments": 999, "total_fragments": 2087, "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": "-" }, { "accession": "GCF_900111885.1", "gtdb_species": "s__Amycolatopsis_D marina", "ani": 79.6174, "matched_fragments": 903, "total_fragments": 2087, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis_D", "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_014654365.1", "gtdb_species": "s__Amycolatopsis oliviviridis", "ani": 79.5101, "matched_fragments": 1013, "total_fragments": 2087, "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": 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