{ "type": "genome", "identifier": "GCF_014892575.1", "organism": "Nocardiopsis coralli", "title": "Nocardiopsis coralli", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Hainan University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014892575.1", "bioproject": "PRJNA224116", "biosample": "SAMN16131672", "wgs_master": "JADBGI000000000.1", "refseq_category": "reference genome", "taxid": "2772213", "species_taxid": "2772213", "organism_name": "Nocardiopsis coralli", "infraspecific_name": "strain=HNM0947", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/13", "asm_name": "ASM1489257v1", "asm_submitter": "Hainan University", "gbrs_paired_asm": "GCA_014892575.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/892/575/GCF_014892575.1_ASM1489257v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6398852", "genome_size_ungapped": "6398852", "gc_percent": "71.500000", "replicon_count": "0", "scaffold_count": "80", "contig_count": "80", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014892575.1-RS_2024_12_16", "annotation_date": "2024-12-16", "total_gene_count": "5566", "protein_coding_gene_count": "5436", "non_coding_gene_count": "74", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-10-13", "dateModified": "2020-10-13", "datePublished": "2020-10-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Nocardiopsis coralli" ], "sample_taxid": [ "2772213" ], "sample_host_organism": [ "coral" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Hainan" ], "sample_host_location_id": [], "data_size": "1.717 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)": "6398852", "Number of Sequences": "80", "Longest Sequences (bp)": "436447", "N50 (bp)": "214684", "Gap Ratio (%)": "0.000828", "GCcontent (%)": "71.3", "Number of CDSs": "5582", "Average Protein Length": "330.3", "Coding Ratio (%)": "86.5", "Number of rRNAs": "4", "Number of tRNAs": "79", "Number of CRISPRs": "11" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nocardiopsis coralli", "strain": "strain=HNM0947", "accession": "GCA_014892575.1", "taxid": 2772213, "species_taxid": 2772213, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2100, "total_fragments": 2103, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nocardiopsis salina", "strain": "strain=YIM 90010", "accession": "GCA_000341025.1", "taxid": 245836, "species_taxid": 245836, "relation_to_type": "type", "validated": true, "ani": 92.3286, "matched_fragments": 1518, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis xinjiangensis", "strain": "strain=YIM 90004", "accession": "GCA_000341145.1", "taxid": 124285, "species_taxid": 124285, "relation_to_type": "type", "validated": true, "ani": 87.2552, "matched_fragments": 1369, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis kunsanensis", "strain": "strain=DSM 44524", "accession": "GCA_000340965.1", "taxid": 141693, "species_taxid": 141693, "relation_to_type": "type", "validated": true, "ani": 86.8521, "matched_fragments": 1317, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis dassonvillei subsp. crassaminis", "strain": "strain=D1", "accession": "GCA_902825375.1", "taxid": 2580523, "species_taxid": 2014, "relation_to_type": "type", "validated": true, "ani": 82.6198, "matched_fragments": 999, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis dassonvillei subsp. dassonvillei", "strain": "strain=DSM 43111", "accession": "GCA_000092985.1", "taxid": 568208, "species_taxid": 2014, "relation_to_type": "type", "validated": true, "ani": 82.4899, "matched_fragments": 1170, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis sinuspersici", "strain": "strain=UTMC 00102", "accession": "GCA_001998325.1", "taxid": 501010, "species_taxid": 501010, "relation_to_type": "type", "validated": true, "ani": 82.2597, "matched_fragments": 1156, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis exhalans", "strain": "strain=JCM11759T", "accession": "GCA_024134545.1", "taxid": 163604, "species_taxid": 163604, "relation_to_type": "type", "validated": true, "ani": 82.2164, "matched_fragments": 1190, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis aegyptia", "strain": "strain=DSM 44442", "accession": "GCA_013410755.1", "taxid": 220378, "species_taxid": 220378, "relation_to_type": "type", "validated": true, "ani": 82.0159, "matched_fragments": 1141, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis lucentensis", "strain": "strain=DSM 44048", "accession": "GCA_000341125.1", "taxid": 53441, "species_taxid": 53441, "relation_to_type": "type", "validated": true, "ani": 81.9347, "matched_fragments": 862, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis listeri", "strain": "strain=NBRC 13360", "accession": "GCA_001570765.1", "taxid": 53440, "species_taxid": 53440, "relation_to_type": "type", "validated": true, "ani": 81.8963, "matched_fragments": 1038, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis flavescens", "strain": "strain=CGMCC 4.5723", "accession": "GCA_900141985.1", "taxid": 758803, "species_taxid": 758803, "relation_to_type": "type", "validated": true, "ani": 81.5346, "matched_fragments": 1173, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis alkaliphila", "strain": "strain=YIM 80379", "accession": "GCA_000341005.1", "taxid": 225762, "species_taxid": 225762, "relation_to_type": "type", "validated": true, "ani": 81.2026, "matched_fragments": 916, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis mwathae", "strain": "strain=DSM 46659", "accession": "GCA_014201195.1", "taxid": 1472723, "species_taxid": 1472723, "relation_to_type": "type", "validated": true, "ani": 79.5711, "matched_fragments": 771, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardiopsis potens", "strain": "strain=DSM 45234", "accession": "GCA_000341105.1", "taxid": 1246458, "species_taxid": 1246458, "relation_to_type": "type", "validated": true, "ani": 79.4661, "matched_fragments": 882, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomonospora litoralis", "strain": "strain=M2", "accession": "GCA_004323735.1", "taxid": 2498135, "species_taxid": 2498135, "relation_to_type": "type", "validated": true, "ani": 79.1401, "matched_fragments": 760, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thermobifida alba", "strain": "strain=DSM 43795", "accession": "GCA_023208015.1", "taxid": 53522, "species_taxid": 53522, "relation_to_type": "type", "validated": true, "ani": 79.005, "matched_fragments": 684, "total_fragments": 2103, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014892575.1", "gtdb_species": "s__Nocardiopsis coralli", "ani": 100.0, "matched_fragments": 2100, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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_000341025.1", "gtdb_species": "s__Nocardiopsis salina", "ani": 92.3178, "matched_fragments": 1521, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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_000341145.1", "gtdb_species": "s__Nocardiopsis xinjiangensis", "ani": 87.2494, "matched_fragments": 1370, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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_000340965.1", "gtdb_species": "s__Nocardiopsis kunsanensis", "ani": 86.8601, "matched_fragments": 1316, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.42", "min_intra_species_ani": "99.42", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_002529455.1", "gtdb_species": "s__Nocardiopsis fusca", "ani": 82.5098, "matched_fragments": 1153, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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_001905145.1", "gtdb_species": "s__Nocardiopsis sp001905145", "ani": 82.4049, "matched_fragments": 1130, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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_001279585.1", "gtdb_species": "s__Nocardiopsis sp001279585", "ani": 82.049, "matched_fragments": 1116, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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_013410755.1", "gtdb_species": "s__Nocardiopsis aegyptia", "ani": 82.0041, "matched_fragments": 1143, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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": "GCA_018316655.1", "gtdb_species": "s__Nocardiopsis sp018316655", "ani": 81.933, "matched_fragments": 1193, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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_000341125.1", "gtdb_species": "s__Nocardiopsis lucentensis", "ani": 81.9237, "matched_fragments": 863, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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_001570765.1", "gtdb_species": "s__Nocardiopsis listeri", "ani": 81.9042, "matched_fragments": 1037, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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_000515115.1", "gtdb_species": "s__Nocardiopsis sp000515115", "ani": 81.5875, "matched_fragments": 881, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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_900141985.1", "gtdb_species": "s__Nocardiopsis flavescens", "ani": 81.5267, "matched_fragments": 1176, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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": "GCA_019115445.1", "gtdb_species": "s__Nocardiopsis merdipullorum", "ani": 80.8271, "matched_fragments": 685, "total_fragments": 2103, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptosporangiales;f__Streptosporangiaceae;g__Nocardiopsis", "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": -0.359, "cell_length": 0.06, "doubling_h": null, "growth_tmp": 28.671, "optimum_tmp": 30.718, "optimum_ph": 8.126, "genome_size": 6294183.832, "gc_content": 71.028, "coding_genes": 5184.289, "rRNA16S_genes": 5.333, "tRNA_genes": 55.833, "gram_stain": 1.0, "sporulation": 1.0, "motility": 0.0, "range_salinity": 0.75, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.937, "thermophilic_range_tmp": 0.062, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.352, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.647, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Nocardiopsis", "coralli" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }