{ "type": "genome", "identifier": "GCF_900109465.1", "organism": "Streptacidiphilus jiangxiensis", "title": "Streptacidiphilus jiangxiensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900109465.1", "bioproject": "PRJNA224116", "biosample": "SAMN05414137", "wgs_master": "FOAZ00000000.1", "refseq_category": "reference genome", "taxid": "235985", "species_taxid": "235985", "organism_name": "Streptacidiphilus jiangxiensis", "infraspecific_name": "strain=CGMCC 4.1857", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/31", "asm_name": "IMG-taxon 2675903135 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900109465.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/109/465/GCF_900109465.1_IMG-taxon_2675903135_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "9538627", "genome_size_ungapped": "9537393", "gc_percent": "72.000000", "replicon_count": "0", "scaffold_count": "94", "contig_count": "94", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900109465.1-RS_2024_04_26", "annotation_date": "2024-04-26", "total_gene_count": "8822", "protein_coding_gene_count": "8564", "non_coding_gene_count": "90", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-31", "dateModified": "2016-10-31", "datePublished": "2016-10-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptacidiphilus jiangxiensis" ], "sample_taxid": [ "235985" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "2.547 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 1.04, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "9538627", "Number of Sequences": "94", "Longest Sequences (bp)": "754832", "N50 (bp)": "310322", "Gap Ratio (%)": "0.012937", "GCcontent (%)": "72.2", "Number of CDSs": "8829", "Average Protein Length": "319.8", "Coding Ratio (%)": "88.8", "Number of rRNAs": "5", "Number of tRNAs": "89", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptacidiphilus jiangxiensis", "strain": "strain=CGMCC 4.1857", "accession": "GCA_900109465.1", "taxid": 235985, "species_taxid": 235985, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 3118, "total_fragments": 3131, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptacidiphilus jiangxiensis", "strain": "strain=NBRC 100920", "accession": "GCA_000787795.1", "taxid": 235985, "species_taxid": 235985, "relation_to_type": "type", "validated": true, "ani": 99.9619, "matched_fragments": 3065, "total_fragments": 3131, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptacidiphilus pinicola", "strain": "strain=MMS16-CNU450", "accession": "GCA_003258295.1", "taxid": 2219663, "species_taxid": 2219663, "relation_to_type": "type", "validated": true, "ani": 87.3258, "matched_fragments": 1864, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptacidiphilus melanogenes", "strain": "strain=NBRC 103184", "accession": "GCA_000787835.1", "taxid": 411235, "species_taxid": 411235, "relation_to_type": "type", "validated": true, "ani": 86.9982, "matched_fragments": 1981, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptacidiphilus anmyonensis", "strain": "strain=NBRC 103185", "accession": "GCA_000787855.1", "taxid": 405782, "species_taxid": 405782, "relation_to_type": "type", "validated": true, "ani": 86.9133, "matched_fragments": 2009, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptacidiphilus neutrinimicus", "strain": "strain=NBRC 100921", "accession": "GCA_000787815.1", "taxid": 105420, "species_taxid": 105420, "relation_to_type": "type", "validated": true, "ani": 86.7767, "matched_fragments": 1901, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptacidiphilus fuscans", "strain": "strain=NEAU-YB345", "accession": "GCA_015690355.1", "taxid": 2789292, "species_taxid": 2789292, "relation_to_type": "type", "validated": true, "ani": 84.1617, "matched_fragments": 1759, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptacidiphilus albus", "strain": "strain=NBRC 100918", "accession": "GCA_000787755.1", "taxid": 105425, "species_taxid": 105425, "relation_to_type": "type", "validated": true, "ani": 80.9431, "matched_fragments": 1476, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptacidiphilus albus", "strain": "strain=JL83", "accession": "GCA_000744705.1", "taxid": 105425, "species_taxid": 105425, "relation_to_type": "type", "validated": true, "ani": 80.9353, "matched_fragments": 1496, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora humi", "strain": "strain=RB6PN24", "accession": "GCA_020907985.1", "taxid": 2893891, "species_taxid": 2893891, "relation_to_type": "type", "validated": true, "ani": 79.6831, "matched_fragments": 1189, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora purpeofusca", "strain": "strain=NRRL B-1817", "accession": "GCA_000718025.1", "taxid": 67352, "species_taxid": 67352, "relation_to_type": "type", "validated": true, "ani": 79.5968, "matched_fragments": 1293, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces albireticuli", "strain": "strain=NRRL B1670", "accession": "GCA_021228125.1", "taxid": 1940, "species_taxid": 1940, "relation_to_type": "type", "validated": true, "ani": 78.6112, "matched_fragments": 1029, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces harenosi", "strain": "strain=PRKS01-65", "accession": "GCA_011008945.1", "taxid": 2697029, "species_taxid": 2697029, "relation_to_type": "type", "validated": true, "ani": 78.5992, "matched_fragments": 979, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces spinosus", "strain": "strain=SBTS01", "accession": "GCA_020400655.1", "taxid": 2872623, "species_taxid": 2872623, "relation_to_type": "type", "validated": true, "ani": 78.4387, "matched_fragments": 1127, "total_fragments": 3131, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 1.04, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900109465.1", "gtdb_species": "s__Streptacidiphilus jiangxiensis", "ani": 100.0, "matched_fragments": 3119, "total_fragments": 3131, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptacidiphilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_003258295.1", "gtdb_species": "s__Streptacidiphilus pinicola", "ani": 87.3346, "matched_fragments": 1864, "total_fragments": 3131, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptacidiphilus", "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_000787835.1", "gtdb_species": "s__Streptacidiphilus melanogenes", "ani": 87.0324, "matched_fragments": 1974, "total_fragments": 3131, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptacidiphilus", "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_000787855.1", "gtdb_species": "s__Streptacidiphilus anmyonensis", "ani": 86.9425, "matched_fragments": 2004, "total_fragments": 3131, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptacidiphilus", "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_000787815.1", "gtdb_species": "s__Streptacidiphilus neutrinimicus", "ani": 86.8218, "matched_fragments": 1893, "total_fragments": 3131, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptacidiphilus", "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_015690355.1", "gtdb_species": "s__Streptacidiphilus fuscans", "ani": 84.1886, "matched_fragments": 1752, "total_fragments": 3131, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptacidiphilus", "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_000719095.1", "gtdb_species": "s__Streptacidiphilus jeojiense", "ani": 81.2035, "matched_fragments": 1481, "total_fragments": 3131, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptacidiphilus", "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_000744705.1", "gtdb_species": "s__Streptacidiphilus albus", "ani": 80.9292, "matched_fragments": 1494, "total_fragments": 3131, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptacidiphilus", "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_005047355.1", "gtdb_species": "s__Streptomyces sp005047355", "ani": 78.0671, "matched_fragments": 1066, "total_fragments": 3131, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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": -0.155, "cell_length": 0.0, "doubling_h": null, "growth_tmp": 29.0, "optimum_tmp": 30.0, "optimum_ph": null, "genome_size": 9533680.5, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 1.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Streptacidiphilus", "jiangxiensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }