{ "type": "genome", "identifier": "GCF_000371785.1", "organism": "Actinopolyspora halophila DSM 43834", "title": "Actinopolyspora halophila DSM 43834", "description": "na", "data type": "Genome sequencing and assembly", "organization": "JGI", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000371785.1", "bioproject": "PRJNA224116", "biosample": "SAMN02261305", "wgs_master": "AQUI00000000.1", "refseq_category": "reference genome", "taxid": "1089546", "species_taxid": "1850", "organism_name": "Actinopolyspora halophila DSM 43834", "infraspecific_name": "strain=DSM 43834", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/04/19", "asm_name": "ASM37178v1", "asm_submitter": "JGI", "gbrs_paired_asm": "GCA_000371785.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/371/785/GCF_000371785.1_ASM37178v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5353291", "genome_size_ungapped": "5353291", "gc_percent": "68.000000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000371785.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "4891", "protein_coding_gene_count": "4739", "non_coding_gene_count": "72", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-04-19", "dateModified": "2013-04-19", "datePublished": "2013-04-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinopolyspora halophila DSM 43834" ], "sample_taxid": [ "1089546" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Missing" ], "sample_host_location_id": [], "data_size": "1.460 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)": "5353291", "Number of Sequences": "2", "Longest Sequences (bp)": "5258501", "N50 (bp)": "5258501", "Gap Ratio (%)": "0.000149", "GCcontent (%)": "68.0", "Number of CDSs": "4967", "Average Protein Length": "304.2", "Coding Ratio (%)": "84.7", "Number of rRNAs": "12", "Number of tRNAs": "57", "Number of CRISPRs": "7" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinopolyspora halophila", "strain": "strain=DSM 43834", "accession": "GCA_000371785.1", "taxid": 1850, "species_taxid": 1850, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1781, "total_fragments": 1783, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinopolyspora biskrensis", "strain": "strain=CECT 8576", "accession": "GCA_013408175.1", "taxid": 1470178, "species_taxid": 1470178, "relation_to_type": "type", "validated": true, "ani": 93.4706, "matched_fragments": 1397, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinopolyspora saharensis", "strain": "strain=DSM 45459", "accession": "GCA_900100925.1", "taxid": 995062, "species_taxid": 995062, "relation_to_type": "type", "validated": true, "ani": 92.2279, "matched_fragments": 1421, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinopolyspora mortivallis", "strain": "strain=HS-1", "accession": "GCA_000384035.1", "taxid": 33906, "species_taxid": 33906, "relation_to_type": "type", "validated": true, "ani": 82.7732, "matched_fragments": 1026, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinopolyspora erythraea", "strain": "strain=YIM 90600", "accession": "GCA_002263515.1", "taxid": 414996, "species_taxid": 414996, "relation_to_type": "type", "validated": true, "ani": 81.9249, "matched_fragments": 1049, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinopolyspora erythraea", "strain": "strain=YIM 90600", "accession": "GCA_000763095.1", "taxid": 414996, "species_taxid": 414996, "relation_to_type": "type", "validated": true, "ani": 81.841, "matched_fragments": 1050, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinopolyspora xinjiangensis", "strain": "strain=DSM 46732", "accession": "GCA_900104475.1", "taxid": 405564, "species_taxid": 405564, "relation_to_type": "type", "validated": true, "ani": 81.8311, "matched_fragments": 1028, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halopolyspora algeriensis", "strain": "strain=DSM 46680", "accession": "GCA_006716575.1", "taxid": 1500506, "species_taxid": 1500506, "relation_to_type": "type", "validated": true, "ani": 79.4228, "matched_fragments": 580, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halopolyspora algeriensis", "strain": "strain=CECT 8575", "accession": "GCA_003337235.1", "taxid": 1500506, "species_taxid": 1500506, "relation_to_type": "type", "validated": true, "ani": 79.3333, "matched_fragments": 586, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharopolyspora karakumensis", "strain": "strain=5K548", "accession": "GCA_004349225.1", "taxid": 2530386, "species_taxid": 2530386, "relation_to_type": "type", "validated": true, "ani": 78.4176, "matched_fragments": 555, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharopolyspora endophytica", "strain": "strain=KCTC 19397", "accession": "GCA_018070075.1", "taxid": 543886, "species_taxid": 543886, "relation_to_type": "type", "validated": true, "ani": 78.3776, "matched_fragments": 576, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Saccharopolyspora rectivirgula", "strain": "strain=DSM 43747", "accession": "GCA_000497205.1", "taxid": 28042, "species_taxid": 28042, "relation_to_type": "type", "validated": true, "ani": 78.3027, "matched_fragments": 458, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia hydrocarbonoxydans", "strain": "strain=NBRC 14498", "accession": "GCA_006539565.1", "taxid": 76726, "species_taxid": 76726, "relation_to_type": "type", "validated": true, "ani": 76.6774, "matched_fragments": 316, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia petroleophila", "strain": "strain=CGMCC 4.1532", "accession": "GCA_014235185.1", "taxid": 37331, "species_taxid": 37331, "relation_to_type": "type", "validated": true, "ani": 76.6206, "matched_fragments": 332, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia acaciae", "strain": "strain=DSM 45401", "accession": "GCA_000620785.1", "taxid": 551276, "species_taxid": 551276, "relation_to_type": "type", "validated": true, "ani": 76.445, "matched_fragments": 391, "total_fragments": 1783, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000371785.1", "gtdb_species": "s__Actinopolyspora halophila", "ani": 100.0, "matched_fragments": 1781, "total_fragments": 1783, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinopolyspora", "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_006716775.1", "gtdb_species": "s__Actinopolyspora sp006716775", "ani": 94.0649, "matched_fragments": 1476, "total_fragments": 1783, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinopolyspora", "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_013408175.1", "gtdb_species": "s__Actinopolyspora biskrensis", "ani": 93.4667, "matched_fragments": 1397, "total_fragments": 1783, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Actinopolyspora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", 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"mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.0, "cell_length": 0.161, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": 7.0, "genome_size": 5353291.0, "gc_content": 68.0, "coding_genes": 4395.5, "rRNA16S_genes": 5.0, "tRNA_genes": 54.0, "gram_stain": 1.0, "sporulation": 1.0, "motility": 0.0, "range_salinity": 1.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.0, "thermophilic_range_tmp": 1.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Actinopolyspora", "halophila", "DSM", "43834" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }