{ "type": "genome", "identifier": "GCF_008710705.1", "organism": "Microbacterium radiodurans", "title": "Microbacterium radiodurans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute for Communicable Disease Control and Prevention, China CDC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_008710705.1", "bioproject": "PRJNA224116", "biosample": "SAMN12792677", "wgs_master": "VYRZ00000000.1", "refseq_category": "reference genome", "taxid": "661398", "species_taxid": "661398", "organism_name": "Microbacterium radiodurans", "infraspecific_name": "strain=DSM 25564", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/09/26", "asm_name": "ASM871070v1", "asm_submitter": "National Institute for Communicable Disease Control and Prevention, China CDC", "gbrs_paired_asm": "GCA_008710705.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/710/705/GCF_008710705.1_ASM871070v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3178485", "genome_size_ungapped": "3178485", "gc_percent": "71.000000", "replicon_count": "0", "scaffold_count": "6", "contig_count": "6", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_008710705.1-RS_2024_11_06", "annotation_date": "2024-11-06", "total_gene_count": "2966", "protein_coding_gene_count": "2904", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-09-26", "dateModified": "2019-09-26", "datePublished": "2019-09-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Microbacterium radiodurans" ], "sample_taxid": [ "661398" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.844 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)": "3178485", "Number of Sequences": "6", "Longest Sequences (bp)": "1253665", "N50 (bp)": "942167", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.8", "Number of CDSs": "2936", "Average Protein Length": "333.4", "Coding Ratio (%)": "92.4", "Number of rRNAs": "3", "Number of tRNAs": "53", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Microbacterium radiodurans", "strain": "strain=DSM 25564", "accession": "GCA_008710705.1", "taxid": 661398, "species_taxid": 661398, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1056, "total_fragments": 1056, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Microbacterium imperiale", "strain": "strain=DSM 20530", "accession": "GCA_017876655.1", "taxid": 33884, "species_taxid": 33884, "relation_to_type": "type", "validated": true, "ani": 84.2462, "matched_fragments": 736, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium telephonicum", "strain": "strain=S2T63", "accession": "GCA_003651225.1", "taxid": 1714841, "species_taxid": 1714841, "relation_to_type": "type", "validated": true, "ani": 81.6103, "matched_fragments": 563, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium aurum", "strain": "strain=DSM 8600", "accession": "GCA_016907815.1", "taxid": 36805, "species_taxid": 36805, "relation_to_type": "type", "validated": true, "ani": 81.4279, "matched_fragments": 543, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium lacticum", "strain": "strain=JCM 1379", "accession": "GCA_014646835.1", "taxid": 33885, "species_taxid": 33885, "relation_to_type": "type", "validated": true, "ani": 81.3686, "matched_fragments": 522, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium saccharophilum", "strain": "strain=K-1", "accession": "GCA_008017435.1", "taxid": 1213358, "species_taxid": 1213358, "relation_to_type": "type", "validated": true, "ani": 81.3629, "matched_fragments": 546, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium saccharophilum", "strain": "strain=NBRC 108778", "accession": "GCA_007992455.1", "taxid": 1213358, "species_taxid": 1213358, "relation_to_type": "type", "validated": true, "ani": 81.3238, "matched_fragments": 544, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium lacticum", "strain": "strain=NBRC 14135", "accession": "GCA_006539445.1", "taxid": 33885, "species_taxid": 33885, "relation_to_type": "type", "validated": true, "ani": 81.2904, "matched_fragments": 530, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium hominis", "strain": "strain=NBRC 15708", "accession": "GCA_001592125.1", "taxid": 162426, "species_taxid": 162426, "relation_to_type": "type", "validated": true, "ani": 81.2764, "matched_fragments": 542, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium hominis", "strain": "strain=LCDC 84-0209", "accession": "GCA_001553805.1", "taxid": 162426, "species_taxid": 162426, "relation_to_type": "type", "validated": true, "ani": 81.18, "matched_fragments": 539, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium marinum", "strain": "strain=DSM 24947", "accession": "GCA_014204835.1", "taxid": 421115, "species_taxid": 421115, "relation_to_type": "type", "validated": true, "ani": 81.055, "matched_fragments": 511, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium pullorum", "strain": "strain=Sa4CUA7", "accession": "GCA_014836535.1", "taxid": 2762236, "species_taxid": 2762236, "relation_to_type": "type", "validated": true, "ani": 80.9249, "matched_fragments": 532, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium helvum", "strain": "strain=NEAU-LLC", "accession": "GCA_014779795.1", "taxid": 2773713, "species_taxid": 2773713, "relation_to_type": "type", "validated": true, "ani": 80.7277, "matched_fragments": 560, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium hibisci", "strain": "strain=CCTCC AB 2016180", "accession": "GCA_015278255.1", "taxid": 2036000, "species_taxid": 2036000, "relation_to_type": "type", "validated": true, "ani": 80.7217, "matched_fragments": 559, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium enclense", "strain": "strain=NIO-1002", "accession": "GCA_001456955.1", "taxid": 993073, "species_taxid": 993073, "relation_to_type": "type", "validated": true, "ani": 80.7169, "matched_fragments": 512, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium cremeum", "strain": "strain=NY27", "accession": "GCA_015277855.1", "taxid": 2782169, "species_taxid": 2782169, "relation_to_type": "type", "validated": true, "ani": 80.6846, "matched_fragments": 553, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium enclense", "strain": "strain=NIO-1002", "accession": "GCA_900096885.1", "taxid": 993073, "species_taxid": 993073, "relation_to_type": "type", "validated": true, "ani": 80.67, "matched_fragments": 516, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium sulfonylureivorans", "strain": "strain=LAM7116", "accession": "GCA_003999995.1", "taxid": 2486854, "species_taxid": 2486854, "relation_to_type": "type", "validated": true, "ani": 80.6562, "matched_fragments": 531, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium atlanticum", "strain": "strain=WY121", "accession": "GCA_015277815.1", "taxid": 2782168, "species_taxid": 2782168, "relation_to_type": "type", "validated": true, "ani": 80.6298, "matched_fragments": 528, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium yannicii", "strain": "strain=DSM 23203", "accession": "GCA_024055635.1", "taxid": 671622, "species_taxid": 671622, "relation_to_type": "type", "validated": true, "ani": 80.3229, "matched_fragments": 552, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium timonense", "strain": "strain=Marseille-P5731", "accession": "GCA_900292075.1", "taxid": 2086576, "species_taxid": 2086576, "relation_to_type": "type", "validated": true, "ani": 80.0728, "matched_fragments": 500, "total_fragments": 1056, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_008710705.1", "gtdb_species": "s__Microbacterium radiodurans", "ani": 100.0, "matched_fragments": 1056, "total_fragments": 1056, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "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_017876655.1", "gtdb_species": "s__Microbacterium imperiale", "ani": 84.2525, "matched_fragments": 735, "total_fragments": 1056, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "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_002245215.1", "gtdb_species": "s__Microbacterium sp002245215", "ani": 84.2118, "matched_fragments": 747, "total_fragments": 1056, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "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_003339645.1", "gtdb_species": "s__Microbacterium arborescens", "ani": 84.0784, "matched_fragments": 752, "total_fragments": 1056, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.05", "min_intra_species_ani": "98.95", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.96", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_013389665.1", "gtdb_species": "s__Microbacterium oleivorans_C", "ani": 84.0597, "matched_fragments": 764, "total_fragments": 1056, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "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_003289625.1", "gtdb_species": "s__Microbacterium sp003289625", "ani": 84.0418, "matched_fragments": 737, "total_fragments": 1056, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.69", "min_intra_species_ani": "98.69", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003610405.1", "gtdb_species": "s__Microbacterium sp003610405", "ani": 83.9588, "matched_fragments": 735, "total_fragments": 1056, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "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_900102175.1", "gtdb_species": "s__Microbacterium sp900102175", "ani": 83.7703, "matched_fragments": 762, "total_fragments": 1056, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "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_003651225.1", "gtdb_species": "s__Microbacterium telephonicum", "ani": 81.6097, "matched_fragments": 563, "total_fragments": 1056, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "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": -0.302, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 28.0, "optimum_ph": 7.0, "genome_size": 3469503.118, "gc_content": 69.764, "coding_genes": 3206.916, "rRNA16S_genes": 1.75, "tRNA_genes": 50.166, "gram_stain": 1.0, "sporulation": 0.111, "motility": 1.0, "range_salinity": 1.0, "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": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Microbacterium", "radiodurans" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }