{ "type": "genome", "identifier": "GCF_022229005.1", "organism": "Micromonospora trifolii", "title": "Micromonospora trifolii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Universidad de Salamanca", "publication": [ {} ], "properties": { "assembly_accession": "GCF_022229005.1", "bioproject": "PRJNA224116", "biosample": "SAMN25050334", "wgs_master": "JAKKFD000000000.1", "refseq_category": "reference genome", "taxid": "2911208", "species_taxid": "2911208", "organism_name": "Micromonospora trifolii", "infraspecific_name": "strain=NIE79", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/02/15", "asm_name": "ASM2222900v1", "asm_submitter": "Universidad de Salamanca", "gbrs_paired_asm": "GCA_022229005.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/229/005/GCF_022229005.1_ASM2222900v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7247792", "genome_size_ungapped": "7247792", "gc_percent": "71.000000", "replicon_count": "0", "scaffold_count": "82", "contig_count": "82", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_022229005.1-RS_2024_08_29", "annotation_date": "2024-08-29", "total_gene_count": "6713", "protein_coding_gene_count": "6534", "non_coding_gene_count": "93", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-02-15", "dateModified": "2022-02-15", "datePublished": "2022-02-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Micromonospora trifolii" ], "sample_taxid": [ "2911208" ], "sample_host_organism": [ "Trifolium" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Spain" ], "sample_host_location_id": [], "data_size": "1.948 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": 28.0, "max": 28.0 }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "7247792", "Number of Sequences": "82", "Longest Sequences (bp)": "453732", "N50 (bp)": "168635", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "71.1", "Number of CDSs": "6630", "Average Protein Length": "325.3", "Coding Ratio (%)": "89.3", "Number of rRNAs": "3", "Number of tRNAs": "96", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Micromonospora saelicesensis", "strain": "strain=DSM 44871", "accession": "GCA_900091575.1", "taxid": 285676, "species_taxid": 285676, "relation_to_type": "type", "validated": true, "ani": 94.9354, "matched_fragments": 2041, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora noduli", "strain": "strain=GUI43", "accession": "GCA_003264365.1", "taxid": 709876, "species_taxid": 709876, "relation_to_type": "type", "validated": true, "ani": 94.9125, "matched_fragments": 1969, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora arida", "strain": "strain=LB32", "accession": "GCA_003857035.1", "taxid": 2203715, "species_taxid": 2203715, "relation_to_type": "type", "validated": true, "ani": 94.4558, "matched_fragments": 1814, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora vinacea", "strain": "strain=DSM 101695", "accession": "GCA_015751785.1", "taxid": 709878, "species_taxid": 709878, "relation_to_type": "type", "validated": true, "ani": 94.1574, "matched_fragments": 2035, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora ureilytica", "strain": "strain=DSM 101692", "accession": "GCA_015751765.1", "taxid": 709868, "species_taxid": 709868, "relation_to_type": "type", "validated": true, "ani": 93.9303, "matched_fragments": 1937, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora inaquosa", "strain": "strain=LB39", "accession": "GCA_003857055.1", "taxid": 2203716, "species_taxid": 2203716, "relation_to_type": "type", "validated": true, "ani": 92.7427, "matched_fragments": 1710, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora zamorensis", "strain": "strain=DSM 45600", "accession": "GCA_900090275.1", "taxid": 709883, "species_taxid": 709883, "relation_to_type": "type", "validated": true, "ani": 90.7828, "matched_fragments": 1854, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora parathelypteridis", "strain": "strain=DSM 103125", "accession": "GCA_014201145.1", "taxid": 1839617, "species_taxid": 1839617, "relation_to_type": "type", "validated": true, "ani": 90.3849, "matched_fragments": 1831, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora parathelypteridis", "strain": "strain=CGMCC 4.7347", "accession": "GCA_014646315.1", "taxid": 1839617, "species_taxid": 1839617, "relation_to_type": "type", "validated": true, "ani": 90.3495, "matched_fragments": 1837, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora luteifusca", "strain": "strain=DSM 100204", "accession": "GCA_016907275.1", "taxid": 709860, "species_taxid": 709860, "relation_to_type": "type", "validated": true, "ani": 90.1853, "matched_fragments": 1803, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora taraxaci", "strain": "strain=DSM 45885", "accession": "GCA_007830095.1", "taxid": 1316803, "species_taxid": 1316803, "relation_to_type": "type", "validated": true, "ani": 90.154, "matched_fragments": 1898, "total_fragments": 2373, "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": 88.8427, "matched_fragments": 1547, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora phytophila", "strain": "strain=DSM 105363", "accession": "GCA_023656545.1", "taxid": 709888, "species_taxid": 709888, "relation_to_type": "type", "validated": true, "ani": 85.1733, "matched_fragments": 1142, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora siamensis", "strain": "strain=DSM 45097", "accession": "GCA_900090305.1", "taxid": 299152, "species_taxid": 299152, "relation_to_type": "type", "validated": true, "ani": 84.3374, "matched_fragments": 1361, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora globispora", "strain": "strain=S2901", "accession": "GCA_003857015.1", "taxid": 1450148, "species_taxid": 1450148, "relation_to_type": "type", "validated": true, "ani": 84.1906, "matched_fragments": 1070, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora ferruginea", "strain": "strain=28ISP2-46", "accession": "GCA_013694245.1", "taxid": 2749844, "species_taxid": 2749844, "relation_to_type": "type", "validated": true, "ani": 83.9118, "matched_fragments": 1412, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora humida", "strain": "strain=MMS20-R1-14", "accession": "GCA_016901255.1", "taxid": 2809018, "species_taxid": 2809018, "relation_to_type": "type", "validated": true, "ani": 83.8489, "matched_fragments": 1424, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora phaseoli", "strain": "strain=NBRC 110907", "accession": "GCA_016863675.1", "taxid": 1144548, "species_taxid": 1144548, "relation_to_type": "type", "validated": true, "ani": 83.1669, "matched_fragments": 1360, "total_fragments": 2373, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900091575.1", "gtdb_species": "s__Micromonospora saelicesensis", "ani": 94.9455, "matched_fragments": 2040, "total_fragments": 2373, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 96.6221, "mean_intra_species_ani": "98.85", "min_intra_species_ani": "97.77", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_003264365.1", "gtdb_species": "s__Micromonospora noduli", "ani": 94.9125, "matched_fragments": 1969, "total_fragments": 2373, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 96.6221, "mean_intra_species_ani": "98.92", "min_intra_species_ani": "97.90", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_018070325.1", "gtdb_species": "s__Micromonospora sp018070325", "ani": 94.8484, "matched_fragments": 1905, "total_fragments": 2373, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.6333, "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_003857035.1", "gtdb_species": "s__Micromonospora arida", "ani": 94.4547, "matched_fragments": 1815, "total_fragments": 2373, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 96.1103, "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_015751785.1", "gtdb_species": "s__Micromonospora vinacea", "ani": 94.1477, "matched_fragments": 2036, "total_fragments": 2373, "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_015751765.1", "gtdb_species": "s__Micromonospora ureilytica", "ani": 93.9403, "matched_fragments": 1936, "total_fragments": 2373, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.52", "min_intra_species_ani": "97.34", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.87", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003857055.1", "gtdb_species": "s__Micromonospora inaquosa", "ani": 92.7428, "matched_fragments": 1710, "total_fragments": 2373, "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_000718555.1", "gtdb_species": "s__Micromonospora chokoriensis_B", "ani": 92.362, "matched_fragments": 1826, "total_fragments": 2373, "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_900090275.1", "gtdb_species": "s__Micromonospora zamorensis", "ani": 90.7764, "matched_fragments": 1854, "total_fragments": 2373, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.71", "min_intra_species_ani": "96.30", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_016907275.1", "gtdb_species": "s__Micromonospora luteifusca", "ani": 90.1941, "matched_fragments": 1802, "total_fragments": 2373, "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_006228125.1", "gtdb_species": "s__Micromonospora orduensis", "ani": 89.2699, "matched_fragments": 1585, "total_fragments": 2373, "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_016802865.1", "gtdb_species": "s__Micromonospora sp016802865", "ani": 89.2246, "matched_fragments": 1487, "total_fragments": 2373, "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_000297395.2", "gtdb_species": "s__Micromonospora lupini", "ani": 88.7094, "matched_fragments": 1824, "total_fragments": 2373, "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_900090305.1", "gtdb_species": "s__Micromonospora siamensis", "ani": 84.3481, "matched_fragments": 1359, "total_fragments": 2373, "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_003857015.1", "gtdb_species": "s__Micromonospora globispora", "ani": 84.1913, "matched_fragments": 1071, "total_fragments": 2373, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.52", "min_intra_species_ani": "99.52", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.244, "cell_length": 0.698, "doubling_h": null, "growth_tmp": 27.687, "optimum_tmp": 29.972, "optimum_ph": 7.268, "genome_size": 6974886.426, "gc_content": 72.396, "coding_genes": 6227.25, "rRNA16S_genes": 3.0, "tRNA_genes": 51.0, "gram_stain": 1.0, "sporulation": 1.0, "motility": 0.0, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.2, "coccus_cell_shape": 0.4, "filament_cell_shape": 0.4, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Micromonospora", "trifolii" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }