{ "type": "genome", "identifier": "GCF_014203835.1", "organism": "Micromonospora polyrhachis", "title": "Micromonospora polyrhachis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014203835.1", "bioproject": "PRJNA224116", "biosample": "SAMN12025952", "wgs_master": "JACHJW000000000.1", "refseq_category": "reference genome", "taxid": "1282883", "species_taxid": "1282883", "organism_name": "Micromonospora polyrhachis", "infraspecific_name": "strain=DSM 45886", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/14", "asm_name": "ASM1420383v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_014203835.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/203/835/GCF_014203835.1_ASM1420383v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7152484", "genome_size_ungapped": "7152484", "gc_percent": "69.000000", "replicon_count": "0", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014203835.1-RS_2024_09_29", "annotation_date": "2024-09-29", "total_gene_count": "6347", "protein_coding_gene_count": "6173", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-14", "dateModified": "2020-08-14", "datePublished": "2020-08-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Micromonospora polyrhachis" ], "sample_taxid": [ "1282883" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.934 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)": "7152484", "Number of Sequences": "1", "Longest Sequences (bp)": "7152484", "N50 (bp)": "7152484", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "69.2", "Number of CDSs": "6420", "Average Protein Length": "331.0", "Coding Ratio (%)": "89.1", "Number of rRNAs": "9", "Number of tRNAs": "59", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Micromonospora polyrhachis", "strain": "strain=DSM 45886", "accession": "GCA_014203835.1", "taxid": 1282883, "species_taxid": 1282883, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2382, "total_fragments": 2384, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Micromonospora phytophila", "strain": "strain=DSM 105363", "accession": "GCA_023656545.1", "taxid": 709888, "species_taxid": 709888, "relation_to_type": "type", "validated": true, "ani": 81.7505, "matched_fragments": 834, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora inositola", "strain": "strain=DSM 43819", "accession": "GCA_900090285.1", "taxid": 47865, "species_taxid": 47865, "relation_to_type": "type", "validated": true, "ani": 81.5147, "matched_fragments": 998, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora echinaurantiaca", "strain": "strain=DSM 43904", "accession": "GCA_900090235.1", "taxid": 47857, "species_taxid": 47857, "relation_to_type": "type", "validated": true, "ani": 81.4748, "matched_fragments": 1146, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora sagamiensis", "strain": "strain=DSM 43912", "accession": "GCA_007829995.1", "taxid": 47875, "species_taxid": 47875, "relation_to_type": "type", "validated": true, "ani": 81.4007, "matched_fragments": 1059, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora rhizosphaerae", "strain": "strain=DSM 45431", "accession": "GCA_900091465.1", "taxid": 568872, "species_taxid": 568872, "relation_to_type": "type", "validated": true, "ani": 81.33, "matched_fragments": 1012, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora peucetia", "strain": "strain=DSM 43363", "accession": "GCA_900091625.1", "taxid": 47871, "species_taxid": 47871, "relation_to_type": "type", "validated": true, "ani": 81.3135, "matched_fragments": 1159, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora inyonensis", "strain": "strain=DSM 46123", "accession": "GCA_900091415.1", "taxid": 47866, "species_taxid": 47866, "relation_to_type": "type", "validated": true, "ani": 81.2982, "matched_fragments": 1013, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora olivasterospora", "strain": "strain=DSM 43868", "accession": "GCA_007830265.1", "taxid": 1880, "species_taxid": 1880, "relation_to_type": "type", "validated": true, "ani": 81.261, "matched_fragments": 1031, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora narathiwatensis", "strain": "strain=DSM 45248", "accession": "GCA_900089605.1", "taxid": 299146, "species_taxid": 299146, "relation_to_type": "type", "validated": true, "ani": 81.2329, "matched_fragments": 1032, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora fulviviridis", "strain": "strain=JCM 3259", "accession": "GCA_014648395.1", "taxid": 47860, "species_taxid": 47860, "relation_to_type": "type", "validated": true, "ani": 81.1873, "matched_fragments": 1089, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora auratinigra", "strain": "strain=DSM 44815", "accession": "GCA_900089595.1", "taxid": 261654, "species_taxid": 261654, "relation_to_type": "type", "validated": true, "ani": 81.1808, "matched_fragments": 1060, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora haikouensis", "strain": "strain=DSM 45626", "accession": "GCA_900091595.1", "taxid": 686309, "species_taxid": 686309, "relation_to_type": "type", "validated": true, "ani": 81.1159, "matched_fragments": 1065, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora cremea", "strain": "strain=DSM 45599", "accession": "GCA_900143515.1", "taxid": 709881, "species_taxid": 709881, "relation_to_type": "type", "validated": true, "ani": 81.0808, "matched_fragments": 1057, "total_fragments": 2384, "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": 81.0771, "matched_fragments": 945, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora terminaliae", "strain": "strain=TMS7", "accession": "GCA_010671825.1", "taxid": 1914461, "species_taxid": 1914461, "relation_to_type": "type", "validated": true, "ani": 80.99, "matched_fragments": 1036, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora maris", "strain": "strain=AB-18-032", "accession": "GCA_000204155.1", "taxid": 1003110, "species_taxid": 1003110, "relation_to_type": "type", "validated": true, "ani": 80.9722, "matched_fragments": 969, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora maris", "strain": "strain=NRRL B-24793", "accession": "GCA_001507315.1", "taxid": 1003110, "species_taxid": 1003110, "relation_to_type": "type", "validated": true, "ani": 80.9716, "matched_fragments": 958, "total_fragments": 2384, "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": 80.8951, "matched_fragments": 1074, "total_fragments": 2384, "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": 80.8783, "matched_fragments": 981, "total_fragments": 2384, "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": 80.8593, "matched_fragments": 1039, "total_fragments": 2384, "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": 80.7909, "matched_fragments": 983, "total_fragments": 2384, "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": 80.7164, "matched_fragments": 929, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phytohabitans suffuscus", "strain": "strain=NBRC 105367", "accession": "GCA_011764565.1", "taxid": 624315, "species_taxid": 624315, "relation_to_type": "type", "validated": true, "ani": 79.197, "matched_fragments": 921, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phytohabitans flavus", "strain": "strain=NBRC 107702", "accession": "GCA_011764545.1", "taxid": 1076124, "species_taxid": 1076124, "relation_to_type": "type", "validated": true, "ani": 78.9486, "matched_fragments": 863, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes flavus", "strain": "strain=NEAU-H7", "accession": "GCA_017592555.1", "taxid": 2820290, "species_taxid": 2820290, "relation_to_type": "type", "validated": true, "ani": 78.3947, "matched_fragments": 813, "total_fragments": 2384, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014203835.1", "gtdb_species": "s__Micromonospora_H polyrhachis", "ani": 100.0, "matched_fragments": 2384, "total_fragments": 2384, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora_H", "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_900090235.1", "gtdb_species": "s__Micromonospora echinaurantiaca", "ani": 81.4499, "matched_fragments": 1140, "total_fragments": 2384, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.93", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.83", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_017614955.1", "gtdb_species": "s__Micromonospora echinofusca_A", "ani": 81.4499, "matched_fragments": 1034, "total_fragments": 2384, "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_900091465.1", "gtdb_species": "s__Micromonospora rhizosphaerae", "ani": 81.3245, "matched_fragments": 1014, "total_fragments": 2384, "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_900091625.1", "gtdb_species": "s__Micromonospora peucetia", "ani": 81.3227, "matched_fragments": 1161, "total_fragments": 2384, "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_003725545.1", "gtdb_species": "s__Micromonospora sp003725545", "ani": 81.3176, "matched_fragments": 952, "total_fragments": 2384, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.97", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900089605.1", "gtdb_species": "s__Micromonospora narathiwatensis", "ani": 81.2936, "matched_fragments": 1022, "total_fragments": 2384, "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_007830265.1", "gtdb_species": "s__Micromonospora olivasterospora", "ani": 81.2452, "matched_fragments": 1028, "total_fragments": 2384, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", 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"ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.72", "min_intra_species_ani": "98.72", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014648395.1", "gtdb_species": "s__Micromonospora fulviviridis", "ani": 81.151, "matched_fragments": 1095, "total_fragments": 2384, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.01", "min_intra_species_ani": "95.01", "mean_intra_species_af": "0.74", "min_intra_species_af": "0.74", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_008868155.1", "gtdb_species": "s__Micromonospora sp008868155", "ani": 81.1218, "matched_fragments": 915, "total_fragments": 2384, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", 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