{ "type": "genome", "identifier": "GCF_016598615.1", "organism": "Streptomyces liliifuscus", "title": "Streptomyces liliifuscus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Hunan Institute of Agricultural Biotechnology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016598615.1", "bioproject": "PRJNA224116", "biosample": "SAMN17100608", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2797636", "species_taxid": "2797636", "organism_name": "Streptomyces liliifuscus", "infraspecific_name": "strain=ZYC-3", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/01/10", "asm_name": "ASM1659861v1", "asm_submitter": "Hunan Institute of Agricultural Biotechnology", "gbrs_paired_asm": "GCA_016598615.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/598/615/GCF_016598615.1_ASM1659861v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "11347200", "genome_size_ungapped": "11347200", "gc_percent": "70.000000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016598615.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "10016", "protein_coding_gene_count": "9767", "non_coding_gene_count": "94", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-01-10", "dateModified": "2021-01-10", "datePublished": "2021-01-10", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptomyces liliifuscus" ], "sample_taxid": [ "2797636" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:changsha" ], "sample_host_location_id": [], "data_size": "3.064 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 7.29, "strain_heterogeneity": 50.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "11347200", "Number of Sequences": "2", "Longest Sequences (bp)": "11027222", "N50 (bp)": "11027222", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.2", "Number of CDSs": "10082", "Average Protein Length": "331.8", "Coding Ratio (%)": "88.4", "Number of rRNAs": "18", "Number of tRNAs": "90", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptomyces phaeochromogenes", "strain": "strain=NRRL B-1248", "accession": "GCA_001418655.1", "taxid": 1923, "species_taxid": 1923, "relation_to_type": "type", "validated": true, "ani": 94.5199, "matched_fragments": 2707, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces umbrinus", "strain": "strain=JCM 4521", "accession": "GCA_014650195.1", "taxid": 67370, "species_taxid": 67370, "relation_to_type": "type", "validated": true, "ani": 94.5156, "matched_fragments": 3129, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces aurantiacus", "strain": "strain=NRRL ISP-5412", "accession": "GCA_001418335.1", "taxid": 47760, "species_taxid": 47760, "relation_to_type": "type", "validated": true, "ani": 88.035, "matched_fragments": 1927, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces fructofermentans", "strain": "strain=JCM 4956", "accession": "GCA_014651055.1", "taxid": 152141, "species_taxid": 152141, "relation_to_type": "type", "validated": true, "ani": 86.6466, "matched_fragments": 2117, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces scabichelini", "strain": "strain=HC44", "accession": "GCA_011045015.1", "taxid": 2711217, "species_taxid": 2711217, "relation_to_type": "type", "validated": true, "ani": 86.2458, "matched_fragments": 2188, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces sporangiiformans", "strain": "strain=NEAU-SSA 1", "accession": "GCA_003568675.1", "taxid": 2315329, "species_taxid": 2315329, "relation_to_type": "type", "validated": true, "ani": 85.8785, "matched_fragments": 2164, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces sporangiiformans", "strain": "strain=NEAU-SSA 1", "accession": "GCA_005768555.2", "taxid": 2315329, "species_taxid": 2315329, "relation_to_type": "type", "validated": true, "ani": 85.8597, "matched_fragments": 2169, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces mirabilis", "strain": "strain=JCM 4551", "accession": "GCA_014650275.1", "taxid": 68239, "species_taxid": 68239, "relation_to_type": "suspected-type", "validated": true, "ani": 85.075, "matched_fragments": 2259, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces avermitilis", "strain": "strain=DSM 46492", "accession": "GCA_001514135.1", "taxid": 33903, "species_taxid": 33903, "relation_to_type": "type", "validated": true, "ani": 85.0718, "matched_fragments": 1980, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces albiflavescens", "strain": "strain=CGMCC 4.7111", "accession": "GCA_014645835.1", "taxid": 1623582, "species_taxid": 1623582, "relation_to_type": "type", "validated": true, "ani": 85.0009, "matched_fragments": 2201, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces avermitilis", "strain": "strain=NBRC 14893", "accession": "GCA_005405965.1", "taxid": 33903, "species_taxid": 33903, "relation_to_type": "type", "validated": true, "ani": 84.9824, "matched_fragments": 2104, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces lacrimifluminis", "strain": "strain=CGMCC 4.7272", "accession": "GCA_014646095.1", "taxid": 1500077, "species_taxid": 1500077, "relation_to_type": "type", "validated": true, "ani": 84.2863, "matched_fragments": 1939, "total_fragments": 3781, "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": 83.986, "matched_fragments": 2162, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces blattellae", "strain": "strain=TRM63209", "accession": "GCA_009709555.1", "taxid": 2569855, "species_taxid": 2569855, "relation_to_type": "type", "validated": true, "ani": 83.9771, "matched_fragments": 1786, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces deccanensis", "strain": "strain=KCTC 19241", "accession": "GCA_022385335.1", "taxid": 424188, "species_taxid": 424188, "relation_to_type": "type", "validated": true, "ani": 83.9367, "matched_fragments": 2088, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces geranii", "strain": "strain=A301", "accession": "GCA_002954775.1", "taxid": 2058923, "species_taxid": 2058923, "relation_to_type": "type", "validated": true, "ani": 83.828, "matched_fragments": 1981, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces panaciradicis", "strain": "strain=NBRC 109811", "accession": "GCA_023516615.1", "taxid": 1470261, "species_taxid": 1470261, "relation_to_type": "type", "validated": true, "ani": 83.5436, "matched_fragments": 1851, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces hyderabadensis", "strain": "strain=JCM 17657", "accession": "GCA_020404845.1", "taxid": 598549, "species_taxid": 598549, "relation_to_type": "type", "validated": true, "ani": 83.2953, "matched_fragments": 1752, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces griseoruber", "strain": "strain=NRRL B-1818", "accession": "GCA_001418585.1", "taxid": 1943, "species_taxid": 1943, "relation_to_type": "type", "validated": true, "ani": 83.2871, "matched_fragments": 1614, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces tendae", "strain": "strain=JCM 4610", "accession": "GCA_014650435.1", "taxid": 1932, "species_taxid": 1932, "relation_to_type": "type", "validated": true, "ani": 83.2369, "matched_fragments": 1800, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces silaceus", "strain": "strain=NRRL B-24166", "accession": "GCA_001419745.1", "taxid": 545123, "species_taxid": 545123, "relation_to_type": "type", "validated": true, "ani": 83.0691, "matched_fragments": 1532, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces durmitorensis", "strain": "strain=MS405", "accession": "GCA_023498005.1", "taxid": 319947, "species_taxid": 319947, "relation_to_type": "type", "validated": true, "ani": 82.7587, "matched_fragments": 1894, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces lasiicapitis", "strain": "strain=CGMCC 4.7349", "accession": "GCA_014646335.1", "taxid": 1923961, "species_taxid": 1923961, "relation_to_type": "type", "validated": true, "ani": 82.4399, "matched_fragments": 1805, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces nymphaeiformis", "strain": "strain=SFB5A", "accession": "GCA_014203895.1", "taxid": 2663842, "species_taxid": 2663842, "relation_to_type": "type", "validated": true, "ani": 81.2141, "matched_fragments": 1521, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces kanasensis", "strain": "strain=ZX01", "accession": "GCA_001484625.1", "taxid": 936756, "species_taxid": 936756, "relation_to_type": "type", "validated": true, "ani": 81.0758, "matched_fragments": 1261, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces omiyaensis", "strain": "strain=JCM 4806", "accession": "GCA_014650895.1", "taxid": 68247, "species_taxid": 68247, "relation_to_type": "type", "validated": true, "ani": 80.844, "matched_fragments": 1505, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces zagrosensis", "strain": "strain=CECT 8305", "accession": "GCA_014203645.1", "taxid": 1042984, "species_taxid": 1042984, "relation_to_type": "type", "validated": true, "ani": 79.3002, "matched_fragments": 1091, "total_fragments": 3781, "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": 79.2688, "matched_fragments": 1261, "total_fragments": 3781, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 7.29, "strain_heterogeneity": 50.0 }, "gtdb_result": [ { "accession": "GCF_016598615.1", "gtdb_species": "s__Streptomyces sp016598615", "ani": 100.0, "matched_fragments": 3779, "total_fragments": 3781, "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": "conclusive" }, { "accession": "GCF_001418655.1", "gtdb_species": "s__Streptomyces phaeochromogenes", "ani": 94.5273, "matched_fragments": 2706, "total_fragments": 3781, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.97", "min_intra_species_ani": "95.89", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_007050945.1", "gtdb_species": "s__Streptomyces sp007050945", "ani": 94.5005, "matched_fragments": 3053, "total_fragments": 3781, "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_008905045.1", "gtdb_species": "s__Streptomyces albicerus", "ani": 89.6395, "matched_fragments": 2595, "total_fragments": 3781, "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_019090165.1", "gtdb_species": "s__Streptomyces sp019090165", "ani": 89.021, "matched_fragments": 2437, "total_fragments": 3781, "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_014650955.1", "gtdb_species": "s__Streptomyces tauricus", "ani": 88.2425, "matched_fragments": 2361, "total_fragments": 3781, "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_001418335.1", "gtdb_species": "s__Streptomyces aurantiacus", "ani": 88.0667, "matched_fragments": 1923, "total_fragments": 3781, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.25", "min_intra_species_ani": "99.25", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018070025.1", "gtdb_species": "s__Streptomyces sp018070025", "ani": 88.0602, "matched_fragments": 2443, "total_fragments": 3781, "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_008369065.1", "gtdb_species": "s__Streptomyces sp008369065", "ani": 87.4083, "matched_fragments": 2078, "total_fragments": 3781, "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_014651055.1", "gtdb_species": "s__Streptomyces fructofermentans", "ani": 86.6435, "matched_fragments": 2117, "total_fragments": 3781, "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_011045015.1", "gtdb_species": "s__Streptomyces scabichelini", "ani": 86.2106, "matched_fragments": 2194, "total_fragments": 3781, "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_003112595.1", "gtdb_species": "s__Streptomyces rubrogriseus", "ani": 83.2148, "matched_fragments": 1806, "total_fragments": 3781, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 96.9168, "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_000931445.1", "gtdb_species": "s__Streptomyces cyaneogriseus", "ani": 83.131, "matched_fragments": 1671, "total_fragments": 3781, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 96.603, "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_009769735.1", "gtdb_species": "s__Streptomyces sp009769735", "ani": 82.8054, "matched_fragments": 1853, "total_fragments": 3781, "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_009862265.1", "gtdb_species": "s__Streptomyces sp009862265", "ani": 81.8224, "matched_fragments": 1406, "total_fragments": 3781, "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_900103455.1", "gtdb_species": "s__Streptomyces wuyuanensis", "ani": 81.2272, "matched_fragments": 1477, "total_fragments": 3781, "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 }, "_genome_taxon": [ "Streptomyces", "liliifuscus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }