{ "type": "genome", "identifier": "GCF_900143515.1", "organism": "Micromonospora cremea", "title": "Micromonospora cremea", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900143515.1", "bioproject": "PRJNA224116", "biosample": "SAMN04489832", "wgs_master": "FSQT00000000.1", "refseq_category": "reference genome", "taxid": "709881", "species_taxid": "709881", "organism_name": "Micromonospora cremea", "infraspecific_name": "strain=DSM 45599", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/12/16", "asm_name": "IMG-taxon 2630968262 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900143515.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/143/515/GCF_900143515.1_IMG-taxon_2630968262_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": "7759667", "genome_size_ungapped": "7759667", "gc_percent": "71.500000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900143515.1-RS_2024_04_25", "annotation_date": "2024-04-25", "total_gene_count": "7371", "protein_coding_gene_count": "7060", "non_coding_gene_count": "63", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-12-16", "dateModified": "2016-12-16", "datePublished": "2016-12-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Micromonospora cremea" ], "sample_taxid": [ "709881" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "2.073 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "7759667", "Number of Sequences": "2", "Longest Sequences (bp)": "4852978", "N50 (bp)": "4852978", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "71.5", "Number of CDSs": "7474", "Average Protein Length": "304.5", "Coding Ratio (%)": "88.0", "Number of rRNAs": "9", "Number of tRNAs": "58", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Micromonospora cremea", "strain": "strain=DSM 45599", "accession": "GCA_900143515.1", "taxid": 709881, "species_taxid": 709881, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2583, "total_fragments": 2585, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Micromonospora coriariae", "strain": "strain=DSM 44875", "accession": "GCA_900091455.1", "taxid": 285665, "species_taxid": 285665, "relation_to_type": "type", "validated": true, "ani": 93.5333, "matched_fragments": 1948, "total_fragments": 2585, "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": 91.923, "matched_fragments": 1601, "total_fragments": 2585, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora orduensis", "strain": "strain=S2509", "accession": "GCA_006228125.1", "taxid": 1420891, "species_taxid": 1420891, "relation_to_type": "type", "validated": true, "ani": 89.4099, "matched_fragments": 1523, "total_fragments": 2585, "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": 89.3069, "matched_fragments": 1724, "total_fragments": 2585, "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": 89.2744, "matched_fragments": 1734, "total_fragments": 2585, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora jinlongensis", "strain": "strain=DSM 45876", "accession": "GCA_013410645.1", "taxid": 1287877, "species_taxid": 1287877, "relation_to_type": "type", "validated": true, "ani": 89.1766, "matched_fragments": 1678, "total_fragments": 2585, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora saelicesensis", "strain": "strain=DSM 44871", "accession": "GCA_900091575.1", "taxid": 285676, "species_taxid": 285676, "relation_to_type": "type", "validated": true, "ani": 88.8393, "matched_fragments": 1724, "total_fragments": 2585, "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": 88.4236, "matched_fragments": 1597, "total_fragments": 2585, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora violae", "strain": "strain=DSM 45888", "accession": "GCA_004217135.1", "taxid": 1278207, "species_taxid": 1278207, "relation_to_type": "type", "validated": true, "ani": 88.4113, "matched_fragments": 1684, "total_fragments": 2585, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora profundi", "strain": "strain=DSM 45981", "accession": "GCA_011927785.1", "taxid": 1420889, "species_taxid": 1420889, "relation_to_type": "type", "validated": true, "ani": 88.022, "matched_fragments": 1612, "total_fragments": 2585, "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": 86.2946, "matched_fragments": 1276, "total_fragments": 2585, "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": 84.6437, "matched_fragments": 1409, "total_fragments": 2585, "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": 84.3031, "matched_fragments": 1371, "total_fragments": 2585, "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": 83.5761, "matched_fragments": 1325, "total_fragments": 2585, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900143515.1", "gtdb_species": "s__Micromonospora cremea", "ani": 100.0, "matched_fragments": 2583, "total_fragments": 2585, "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": "conclusive" }, { "accession": "GCF_018070045.1", "gtdb_species": "s__Micromonospora sp018070045", "ani": 94.5949, "matched_fragments": 2001, "total_fragments": 2585, "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_900091455.1", "gtdb_species": "s__Micromonospora coriariae", "ani": 93.5527, "matched_fragments": 1947, "total_fragments": 2585, "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_003667505.1", "gtdb_species": "s__Micromonospora sp003667505", "ani": 93.4489, "matched_fragments": 1752, "total_fragments": 2585, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.83", "min_intra_species_ani": "98.83", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003172955.1", "gtdb_species": "s__Micromonospora sp003172955", "ani": 91.9018, "matched_fragments": 1604, "total_fragments": 2585, "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": 89.4193, "matched_fragments": 1522, "total_fragments": 2585, "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_014201145.1", "gtdb_species": "s__Micromonospora parathelypteridis", "ani": 89.2484, "matched_fragments": 1737, "total_fragments": 2585, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000297395.2", "gtdb_species": "s__Micromonospora lupini", "ani": 88.9695, "matched_fragments": 1703, "total_fragments": 2585, "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_003857035.1", "gtdb_species": "s__Micromonospora arida", "ani": 88.6716, "matched_fragments": 1581, "total_fragments": 2585, "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_016803395.1", "gtdb_species": "s__Micromonospora sp016803395", "ani": 88.5922, "matched_fragments": 1419, "total_fragments": 2585, "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_003857055.1", "gtdb_species": "s__Micromonospora inaquosa", "ani": 88.4033, "matched_fragments": 1599, "total_fragments": 2585, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.398, "cell_length": 0.698, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 29.972, "optimum_ph": 7.268, "genome_size": 7759667.0, "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", "cremea" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }