{ "type": "genome", "identifier": "GCF_000024545.1", "organism": "Stackebrandtia nassauensis DSM 44728", "title": "Stackebrandtia nassauensis DSM 44728", "description": "na", "data type": "Genome sequencing and assembly", "organization": "US DOE Joint Genome Institute (JGI-PGF)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000024545.1", "bioproject": "PRJNA224116", "biosample": "SAMN02598427", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "446470", "species_taxid": "283811", "organism_name": "Stackebrandtia nassauensis DSM 44728", "infraspecific_name": "strain=DSM 44728", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2010/03/05", "asm_name": "ASM2454v1", "asm_submitter": "US DOE Joint Genome Institute (JGI-PGF)", "gbrs_paired_asm": "GCA_000024545.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/024/545/GCF_000024545.1_ASM2454v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6841557", "genome_size_ungapped": "6841557", "gc_percent": "68.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2023-04-24", "total_gene_count": "6519", "protein_coding_gene_count": "6414", "non_coding_gene_count": "55", "pubmed_id": "21304662" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2010-03-05", "dateModified": "2010-03-05", "datePublished": "2010-03-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Stackebrandtia nassauensis DSM 44728" ], "sample_taxid": [ "446470" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [ "None" ], "sample_host_disease_id": [], "sample_host_location": [ "Bahamas: Nassau" ], "sample_host_location_id": [], "data_size": "1.858 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "6841557", "Number of Sequences": "1", "Longest Sequences (bp)": "6841557", "N50 (bp)": "6841557", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.1", "Number of CDSs": "6509", "Average Protein Length": "320.5", "Coding Ratio (%)": "91.5", "Number of rRNAs": "6", "Number of tRNAs": "56", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Stackebrandtia nassauensis", "strain": "strain=DSM 44728", "accession": "GCA_000024545.1", "taxid": 283811, "species_taxid": 283811, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2280, "total_fragments": 2280, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Stackebrandtia albiflava", "strain": "strain=DSM 45044", "accession": "GCA_007994225.1", "taxid": 406432, "species_taxid": 406432, "relation_to_type": "type", "validated": true, "ani": 79.0967, "matched_fragments": 716, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stackebrandtia endophytica", "strain": "strain=DSM 45928", "accession": "GCA_006716355.1", "taxid": 1496996, "species_taxid": 1496996, "relation_to_type": "type", "validated": true, "ani": 78.5825, "matched_fragments": 610, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Glycomyces arizonensis", "strain": "strain=DSM 44726", "accession": "GCA_000482705.1", "taxid": 256035, "species_taxid": 256035, "relation_to_type": "type", "validated": true, "ani": 77.7019, "matched_fragments": 513, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Glycomyces xiaoerkulensis", "strain": "strain=TRM 41368", "accession": "GCA_002798405.1", "taxid": 2038139, "species_taxid": 2038139, "relation_to_type": "type", "validated": true, "ani": 77.6503, "matched_fragments": 468, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phytomonospora endophytica", "strain": "strain=YIM 65646", "accession": "GCA_014202425.1", "taxid": 714109, "species_taxid": 714109, "relation_to_type": "type", "validated": true, "ani": 77.5515, "matched_fragments": 740, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora veneta", "strain": "strain=CAP181", "accession": "GCA_016598485.1", "taxid": 2796464, "species_taxid": 2796464, "relation_to_type": "type", "validated": true, "ani": 77.1551, "matched_fragments": 513, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Glycomyces paridis", "strain": "strain=CPCC 204357", "accession": "GCA_004912155.1", "taxid": 2126555, "species_taxid": 2126555, "relation_to_type": "type", "validated": true, "ani": 77.1279, "matched_fragments": 518, "total_fragments": 2280, "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": 77.1133, "matched_fragments": 481, "total_fragments": 2280, "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": 76.9821, "matched_fragments": 623, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Catellatospora paridis", "strain": "strain=NEAU-CL2", "accession": "GCA_009720365.1", "taxid": 1617086, "species_taxid": 1617086, "relation_to_type": "type", "validated": true, "ani": 76.9137, "matched_fragments": 631, "total_fragments": 2280, "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": 76.8665, "matched_fragments": 609, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora carbonacea", "strain": "strain=DSM 43815", "accession": "GCA_014205165.1", "taxid": 47853, "species_taxid": 47853, "relation_to_type": "type", "validated": true, "ani": 76.8095, "matched_fragments": 621, "total_fragments": 2280, "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": 76.8087, "matched_fragments": 639, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Catellatospora methionotrophica", "strain": "strain=IMSNU 22006", "accession": "GCA_011297335.1", "taxid": 121620, "species_taxid": 121620, "relation_to_type": "type", "validated": true, "ani": 76.8084, "matched_fragments": 630, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora carbonacea", "strain": "strain=aurantiaca", "accession": "GCA_013389765.1", "taxid": 47853, "species_taxid": 47853, "relation_to_type": "type", "validated": true, "ani": 76.802, "matched_fragments": 617, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Catellatospora methionotrophica", "strain": "strain=NBRC 14553", "accession": "GCA_016862655.1", "taxid": 121620, "species_taxid": 121620, "relation_to_type": "type", "validated": true, "ani": 76.7746, "matched_fragments": 631, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Inhella inkyongensis", "strain": "strain=IMCC1713", "accession": "GCA_005952805.1", "taxid": 392593, "species_taxid": 392593, "relation_to_type": "type", "validated": true, "ani": 75.0514, "matched_fragments": 81, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidovorax anthurii", "strain": "strain=CFPB 3232", "accession": "GCA_003269065.1", "taxid": 78229, "species_taxid": 78229, "relation_to_type": "type", "validated": true, "ani": 74.9748, "matched_fragments": 129, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Inhella inkyongensis", "strain": "strain=DSM 23958", "accession": "GCA_014202795.1", "taxid": 392593, "species_taxid": 392593, "relation_to_type": "type", "validated": true, "ani": 74.9608, "matched_fragments": 82, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidovorax citrulli", "strain": "strain=DSM 17060", "accession": "GCA_900100305.1", "taxid": 80869, "species_taxid": 80869, "relation_to_type": "type", "validated": true, "ani": 74.9241, "matched_fragments": 119, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidovorax avenae subsp. avenae", "strain": "strain=ATCC 19860", "accession": "GCA_000176855.2", "taxid": 80870, "species_taxid": 80867, "relation_to_type": "suspected-type", "validated": true, "ani": 74.8961, "matched_fragments": 133, "total_fragments": 2280, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 0.0 }, 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"gtdb_species": "s__Glycomyces arizonensis", "ani": 77.7386, "matched_fragments": 508, "total_fragments": 2280, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Glycomyces", "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_002798405.1", "gtdb_species": "s__Glycomyces xiaoerkulensis", "ani": 77.6535, "matched_fragments": 464, "total_fragments": 2280, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Glycomyces", "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_014202425.1", "gtdb_species": "s__Phytomonospora endophytica", "ani": 77.5076, "matched_fragments": 750, "total_fragments": 2280, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Phytomonospora", "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": 2, "status": "-" }, { "accession": "GCA_019112895.1", "gtdb_species": "s__Stackebrandtia faecavium", "ani": 77.3606, "matched_fragments": 266, "total_fragments": 2280, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Stackebrandtia", "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_019113825.1", "gtdb_species": "s__Stackebrandtia excrementipullorum", "ani": 77.3342, "matched_fragments": 352, "total_fragments": 2280, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Stackebrandtia", "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_003172955.1", "gtdb_species": "s__Micromonospora sp003172955", "ani": 77.1575, "matched_fragments": 475, "total_fragments": 2280, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "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_900107255.1", "gtdb_species": "s__Micromonospora_E pattaloongensis", "ani": 77.1122, 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