{ "type": "genome", "identifier": "GCF_014930365.1", "organism": "Streptomyces caniscabiei", "title": "Streptomyces caniscabiei", "description": "na", "data type": "Genome sequencing and assembly", "organization": "USDA ARS", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014930365.1", "bioproject": "PRJNA224116", "biosample": "SAMN15335182", "wgs_master": "JABXWI000000000.1", "refseq_category": "na", "taxid": "2746961", "species_taxid": "2746961", "organism_name": "Streptomyces caniscabiei", "infraspecific_name": "strain=NE06-02D", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/10/23", "asm_name": "ASM1493036v1", "asm_submitter": "USDA ARS", "gbrs_paired_asm": "GCA_014930365.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/930/365/GCF_014930365.1_ASM1493036v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "10932736", "genome_size_ungapped": "10931658", "gc_percent": "71.500000", "replicon_count": "0", "scaffold_count": "73", "contig_count": "73", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014930365.1-RS_2024_03_13", "annotation_date": "2024-03-13", "total_gene_count": "9661", "protein_coding_gene_count": "9332", "non_coding_gene_count": "81", "pubmed_id": "33030393" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-10-23", "dateModified": "2020-10-23", "datePublished": "2020-10-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptomyces caniscabiei" ], "sample_taxid": [ "2746961" ], "sample_host_organism": [ "Solanum tuberosum" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Nebraska" ], "sample_host_location_id": [], "data_size": "2.941 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)": "10932736", "Number of Sequences": "73", "Longest Sequences (bp)": "935983", "N50 (bp)": "480201", "Gap Ratio (%)": "0.009860", "GCcontent (%)": "71.3", "Number of CDSs": "9717", "Average Protein Length": "329.4", "Coding Ratio (%)": "87.8", "Number of rRNAs": "4", "Number of tRNAs": "86", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptomyces caniscabiei", "strain": "strain=NE06-02D", "accession": "GCA_014930365.1", "taxid": 2746961, "species_taxid": 2746961, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 3609, "total_fragments": 3612, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptomyces deccanensis", "strain": "strain=KCTC 19241", "accession": "GCA_022385335.1", "taxid": 424188, "species_taxid": 424188, "relation_to_type": "type", "validated": true, "ani": 93.728, "matched_fragments": 2761, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces brasiliscabiei", "strain": "strain=IBSBF 2867", "accession": "GCA_018927715.1", "taxid": 2736302, "species_taxid": 2736302, "relation_to_type": "type", "validated": true, "ani": 90.4523, "matched_fragments": 2437, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces phaeolivaceus", "strain": "strain=GY16", "accession": "GCA_009184865.1", "taxid": 2653200, "species_taxid": 2653200, "relation_to_type": "type", "validated": true, "ani": 90.2717, "matched_fragments": 2447, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces bottropensis", "strain": "strain=ATCC 25435", "accession": "GCA_000340335.2", "taxid": 42235, "species_taxid": 42235, "relation_to_type": "type", "validated": true, "ani": 90.0722, "matched_fragments": 2357, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces bottropensis", "strain": "strain=ATCC 25435", "accession": "GCA_000383595.1", "taxid": 42235, "species_taxid": 42235, "relation_to_type": "type", "validated": true, "ani": 90.0566, "matched_fragments": 2354, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces stelliscabiei", "strain": "strain=DSM 41803", "accession": "GCA_014873495.1", "taxid": 146820, "species_taxid": 146820, "relation_to_type": "type", "validated": true, "ani": 90.0481, "matched_fragments": 2533, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces adelaidensis", "strain": "strain=CAP261", "accession": "GCA_016598475.1", "taxid": 2796465, "species_taxid": 2796465, "relation_to_type": "type", "validated": true, "ani": 89.0488, "matched_fragments": 2248, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces torulosus", "strain": "strain=NRRL B-3889", "accession": "GCA_001419765.1", "taxid": 68276, "species_taxid": 68276, "relation_to_type": "type", "validated": true, "ani": 87.6617, "matched_fragments": 1912, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces neyagawaensis", "strain": "strain=JCM 4796", "accession": "GCA_023516595.1", "taxid": 42238, "species_taxid": 42238, "relation_to_type": "type", "validated": true, "ani": 87.4684, "matched_fragments": 2297, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces justiciae", "strain": "strain=3R004", "accession": "GCA_015163075.1", "taxid": 2780140, "species_taxid": 2780140, "relation_to_type": "type", "validated": true, "ani": 84.1583, "matched_fragments": 2049, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces hokutonensis", "strain": "strain=R1-NS-10", "accession": "GCA_000376565.1", "taxid": 1306990, "species_taxid": 1306990, "relation_to_type": "type", "validated": true, "ani": 83.5008, "matched_fragments": 1963, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces bungoensis", "strain": "strain=DSM 41781", "accession": "GCA_001514215.1", "taxid": 285568, "species_taxid": 285568, "relation_to_type": "type", "validated": true, "ani": 83.2109, "matched_fragments": 1723, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces monashensis", "strain": "strain=MUSC 1", "accession": "GCA_001866665.1", "taxid": 1678012, "species_taxid": 1678012, "relation_to_type": "type", "validated": true, "ani": 82.9719, "matched_fragments": 1768, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila glaucinigra", "strain": "strain=CGMCC 4.1858", "accession": "GCA_900188405.1", "taxid": 235986, "species_taxid": 235986, "relation_to_type": "type", "validated": true, "ani": 79.9031, "matched_fragments": 1421, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces parmotrematis", "strain": "strain=Ptm05", "accession": "GCA_019890615.1", "taxid": 2873249, "species_taxid": 2873249, "relation_to_type": "type", "validated": true, "ani": 79.8147, "matched_fragments": 1136, "total_fragments": 3612, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 1.04, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900114955.1", "gtdb_species": "s__Streptomyces sp900114955", "ani": 99.4514, "matched_fragments": 3036, "total_fragments": 3612, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.68", "min_intra_species_ani": "97.04", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 10, "status": "conclusive" }, { "accession": "GCF_000772895.1", "gtdb_species": "s__Streptomyces galbus_A", "ani": 92.9624, "matched_fragments": 2677, "total_fragments": 3612, "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_014203845.1", "gtdb_species": "s__Streptomyces scabiei_E", "ani": 92.5039, "matched_fragments": 2463, "total_fragments": 3612, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.38", "min_intra_species_ani": "95.38", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.80", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018927715.1", "gtdb_species": "s__Streptomyces brasiliscabiei", "ani": 90.487, "matched_fragments": 2431, "total_fragments": 3612, "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_009184865.1", "gtdb_species": "s__Streptomyces phaeolivaceus", "ani": 90.272, "matched_fragments": 2447, "total_fragments": 3612, "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_001550375.1", "gtdb_species": "s__Streptomyces europaeiscabiei", "ani": 90.0717, "matched_fragments": 2242, "total_fragments": 3612, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.72", "min_intra_species_ani": "96.30", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.82", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014873495.1", "gtdb_species": "s__Streptomyces stelliscabiei", "ani": 90.0608, "matched_fragments": 2532, "total_fragments": 3612, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 96.7549, "mean_intra_species_ani": "99.87", "min_intra_species_ani": "99.68", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.96", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000383595.1", "gtdb_species": "s__Streptomyces bottropensis", "ani": 90.0479, "matched_fragments": 2356, "total_fragments": 3612, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 96.7549, "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": 3, "status": "-" }, { "accession": "GCF_016598475.1", "gtdb_species": "s__Streptomyces adelaidensis", "ani": 89.0528, "matched_fragments": 2247, "total_fragments": 3612, "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_900103585.1", "gtdb_species": "s__Streptomyces sp900103585", "ani": 84.0672, "matched_fragments": 2090, "total_fragments": 3612, "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_014673495.1", "gtdb_species": "s__Streptomyces griseofuscus", "ani": 82.5983, "matched_fragments": 1647, "total_fragments": 3612, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 97.0065, "mean_intra_species_ani": "98.75", "min_intra_species_ani": "98.11", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_007595705.1", "gtdb_species": "s__Streptomyces sp007595705", "ani": 80.3266, "matched_fragments": 1343, "total_fragments": 3612, "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_015999245.1", "gtdb_species": "s__Streptomyces sp015999245", "ani": 80.1991, "matched_fragments": 1194, "total_fragments": 3612, "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_900188405.1", "gtdb_species": "s__Streptomyces glauciniger", "ani": 79.8758, "matched_fragments": 1425, "total_fragments": 3612, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.09", "min_intra_species_ani": "95.09", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_015776785.2", "gtdb_species": "s__Kitasatospora sp015776785", "ani": 78.6814, "matched_fragments": 1007, "total_fragments": 3612, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Kitasatospora", "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 }, "_genome_taxon": [ "Streptomyces", "caniscabiei" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }