{ "type": "genome", "identifier": "GCA_013362425.1", "organism": "Streptomyces sp.", "title": "Streptomyces sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Arizona State University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_013362425.1", "bioproject": "PRJNA622594", "biosample": "SAMN14571702", "wgs_master": "JABFWG000000000.1", "refseq_category": "na", "taxid": "1931", "species_taxid": "1931", "organism_name": "Streptomyces sp.", "infraspecific_name": "", "isolate": "Bin1.21", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/06/18", "asm_name": "ASM1336242v1", "submitter": "Arizona State University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/013/362/425/GCA_013362425.1_ASM1336242v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-06-18", "dateModified": "2020-06-18", "datePublished": "2020-06-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptomyces sp." ], "sample_taxid": [ "1931" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Poamoho, Hawaii" ], "sample_host_location_id": [], "data_size": "2.422 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 41.32, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "8931589", "Number of Sequences": "1588", "Longest Sequences (bp)": "97024", "N50 (bp)": "6754", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "73.1", "Number of CDSs": "6818", "Average Protein Length": "308.9", "Coding Ratio (%)": "70.7", "Number of rRNAs": "0", "Number of tRNAs": "71", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinacidiphila epipremni", "strain": "strain=PRB2-1", "accession": "GCA_012034175.1", "taxid": 2053013, "species_taxid": 2053013, "relation_to_type": "type", "validated": true, "ani": 86.9151, "matched_fragments": 1240, "total_fragments": 2113, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila bryophytorum", "strain": "strain=DSM 42138", "accession": "GCA_016916835.1", "taxid": 1436133, "species_taxid": 1436133, "relation_to_type": "type", "validated": true, "ani": 86.2734, "matched_fragments": 1216, "total_fragments": 2113, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila bryophytorum", "strain": "strain=DSM 42138", "accession": "GCA_017164735.1", "taxid": 1436133, "species_taxid": 1436133, "relation_to_type": "type", "validated": true, "ani": 86.2392, "matched_fragments": 1106, "total_fragments": 2113, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila paucisporea", "strain": "strain=CGMCC 4.2025", "accession": "GCA_900142575.1", "taxid": 310782, "species_taxid": 310782, "relation_to_type": "type", "validated": true, "ani": 85.9164, "matched_fragments": 1226, "total_fragments": 2113, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila alni", "strain": "strain=CGMCC 4.3510", "accession": "GCA_900112845.1", "taxid": 380248, "species_taxid": 380248, "relation_to_type": "type", "validated": true, "ani": 83.111, "matched_fragments": 1073, "total_fragments": 2113, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila guanduensis", "strain": "strain=CGMCC 4.2022", "accession": "GCA_900103985.1", "taxid": 310781, "species_taxid": 310781, "relation_to_type": "type", "validated": true, "ani": 82.6401, "matched_fragments": 1046, "total_fragments": 2113, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila yanglinensis", "strain": "strain=CGMCC 4.2023", "accession": "GCA_900107965.1", "taxid": 310779, "species_taxid": 310779, "relation_to_type": "type", "validated": true, "ani": 82.4618, "matched_fragments": 1124, "total_fragments": 2113, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces lichenis", "strain": "strain=LCR6-01", "accession": "GCA_023218175.1", "taxid": 2306967, "species_taxid": 2306967, "relation_to_type": "type", "validated": true, "ani": 79.7652, "matched_fragments": 813, "total_fragments": 2113, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila oryziradicis", "strain": "strain=NEAU-C40", "accession": "GCA_005047355.1", "taxid": 2571141, "species_taxid": 2571141, "relation_to_type": "type", "validated": true, "ani": 79.6836, "matched_fragments": 897, "total_fragments": 2113, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces sudanensis", "strain": "strain=SD 504", "accession": "GCA_023614315.1", "taxid": 436397, "species_taxid": 436397, "relation_to_type": "type", "validated": true, "ani": 79.673, "matched_fragments": 691, "total_fragments": 2113, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces rapamycinicus", "strain": "strain=NRRL 5491", "accession": "GCA_024298965.1", "taxid": 1226757, "species_taxid": 1226757, "relation_to_type": "type", "validated": true, "ani": 79.1826, "matched_fragments": 985, "total_fragments": 2113, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 41.32, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000721495.1", "gtdb_species": "s__Streptomyces sp000721495", "ani": 87.7446, "matched_fragments": 1343, "total_fragments": 2113, "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": "-" }, { "accession": "GCF_012034175.1", "gtdb_species": "s__Streptomyces sp012034175", "ani": 86.9046, "matched_fragments": 1241, "total_fragments": 2113, "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": "-" }, { "accession": "GCF_016916835.1", "gtdb_species": "s__Streptomyces bryophytorum", "ani": 86.2341, "matched_fragments": 1221, "total_fragments": 2113, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.96", "min_intra_species_ani": "99.96", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900142575.1", "gtdb_species": "s__Streptomyces paucisporeus", "ani": 85.8774, "matched_fragments": 1231, "total_fragments": 2113, "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": "-" }, { "accession": "GCF_000701325.1", "gtdb_species": "s__Streptomyces sp000701325", "ani": 85.7522, "matched_fragments": 1185, "total_fragments": 2113, "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": "-" }, { "accession": "GCF_900103985.1", "gtdb_species": "s__Streptomyces guanduensis", "ani": 82.6269, "matched_fragments": 1049, "total_fragments": 2113, "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": -0.201, "cell_length": -0.05, "doubling_h": 0.103, "growth_tmp": 27.757, "optimum_tmp": 29.036, "optimum_ph": 7.341, "genome_size": 8292419.302, "gc_content": 71.543, "coding_genes": 7141.289, "rRNA16S_genes": 6.155, "tRNA_genes": 67.804, "gram_stain": 0.998, "sporulation": 0.958, "motility": 0.049, "range_salinity": 0.666, "facultative_respiration": 0.0, "anaerobic_respiration": 0.005, "aerobic_respiration": 0.994, "mesophilic_range_tmp": 0.98, "thermophilic_range_tmp": 0.019, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.208, "coccus_cell_shape": 0.032, "filament_cell_shape": 0.582, "coccobacillus_cell_shape": 0.098, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.076 }, "_gtdb_taxon": [ "d__Bacteria", "p__Actinomycetota", "c__Actinomycetes", "o__Streptomycetales", "f__Streptomycetaceae", "g__Actinacidiphila", "s__" ], "_genome_taxon": [ "Streptomyces", "sp.", "d__Bacteria", "p__Actinomycetota", "c__Actinomycetes", "o__Streptomycetales", "f__Streptomycetaceae", "g__Actinacidiphila", "s__", "Bacteria", "Actinomycetota", "Actinomycetes", "Streptomycetales", "Streptomycetaceae", "Actinacidiphila", "s", "", "" ], "_meo": [ { "id": "MEO_0000007", "label": "soil" }, { "id": "MEO_0000072", "label": "biochar" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }