{ "type": "genome", "identifier": "GCF_000956415.1", "organism": "Microbacterium foliorum", "title": "Microbacterium foliorum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Austrian Institute of Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000956415.1", "bioproject": "PRJNA224116", "biosample": "SAMN03256325", "wgs_master": "JYIU00000000.1", "refseq_category": "na", "taxid": "104336", "species_taxid": "104336", "organism_name": "Microbacterium foliorum", "infraspecific_name": "strain=DSM 12966", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/03/19", "asm_name": "ASM95641v1", "asm_submitter": "Austrian Institute of Technology", "gbrs_paired_asm": "GCA_000956415.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/956/415/GCF_000956415.1_ASM95641v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3558318", "genome_size_ungapped": "3558318", "gc_percent": "68.500000", "replicon_count": "0", "scaffold_count": "46", "contig_count": "46", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000956415.1-RS_2024_04_22", "annotation_date": "2024-04-22", "total_gene_count": "3387", "protein_coding_gene_count": "3315", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-03-19", "dateModified": "2015-03-19", "datePublished": "2015-03-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Microbacterium foliorum" ], "sample_taxid": [ "104336" ], "sample_host_organism": [ "grasses" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany" ], "sample_host_location_id": [], "data_size": "0.962 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)": "3558318", "Number of Sequences": "46", "Longest Sequences (bp)": "748939", "N50 (bp)": "151883", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.7", "Number of CDSs": "3368", "Average Protein Length": "322.2", "Coding Ratio (%)": "91.5", "Number of rRNAs": "3", "Number of tRNAs": "50", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Microbacterium foliorum", "strain": "strain=DSM 12966", "accession": "GCA_000956415.1", "taxid": 104336, "species_taxid": 104336, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 1162, "total_fragments": 1164, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Microbacterium foliorum", "strain": "strain=NRRL B-24224", "accession": "GCA_003367705.1", "taxid": 104336, "species_taxid": 104336, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9962, "matched_fragments": 1164, "total_fragments": 1164, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Microbacterium phyllosphaerae", "strain": "strain=DSM 13468", "accession": "GCA_017876435.1", "taxid": 124798, "species_taxid": 124798, "relation_to_type": "type", "validated": true, "ani": 86.0561, "matched_fragments": 880, "total_fragments": 1164, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium hydrocarbonoxydans", "strain": "strain=NBRC 103074", "accession": "GCA_001552455.1", "taxid": 273678, "species_taxid": 273678, "relation_to_type": "suspected-type", "validated": true, "ani": 85.2194, "matched_fragments": 816, "total_fragments": 1164, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium hydrocarbonoxydans", "strain": "strain=DSM 16089", "accession": "GCA_900105205.1", "taxid": 273678, "species_taxid": 273678, "relation_to_type": "suspected-type", "validated": true, "ani": 85.0775, "matched_fragments": 857, "total_fragments": 1164, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium liquefaciens", "strain": "strain=NBRC 15037", "accession": "GCA_006539765.1", "taxid": 33918, "species_taxid": 33918, "relation_to_type": "type", "validated": true, "ani": 83.0932, "matched_fragments": 702, "total_fragments": 1164, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium saperdae", "strain": "strain=JCM 1352", "accession": "GCA_014646775.1", "taxid": 69368, "species_taxid": 69368, "relation_to_type": "type", "validated": true, "ani": 83.0854, "matched_fragments": 772, "total_fragments": 1164, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium liquefaciens", "strain": "strain=JCM 3879", "accession": "GCA_014648755.1", "taxid": 33918, "species_taxid": 33918, "relation_to_type": "type", "validated": true, "ani": 82.9993, "matched_fragments": 700, "total_fragments": 1164, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium commune", "strain": "strain=Re1", "accession": "GCA_014836945.1", "taxid": 2762219, "species_taxid": 2762219, "relation_to_type": "type", "validated": true, "ani": 81.3944, "matched_fragments": 563, "total_fragments": 1164, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium gallinarum", "strain": "strain=Sa1CUA4", "accession": "GCA_014837165.1", "taxid": 2762209, "species_taxid": 2762209, "relation_to_type": "type", "validated": true, "ani": 79.8137, "matched_fragments": 508, "total_fragments": 1164, "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": 79.6166, "matched_fragments": 495, "total_fragments": 1164, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium invictum", "strain": "strain=DSM 19600", "accession": "GCA_023155715.1", "taxid": 515415, "species_taxid": 515415, "relation_to_type": "type", "validated": true, "ani": 79.3261, "matched_fragments": 464, "total_fragments": 1164, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microbacterium invictum", "strain": "strain=JCM 17023", "accession": "GCA_015278285.1", "taxid": 515415, "species_taxid": 515415, "relation_to_type": "type", "validated": true, "ani": 79.2559, "matched_fragments": 462, "total_fragments": 1164, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003367705.1", "gtdb_species": "s__Microbacterium foliorum", "ani": 99.9962, "matched_fragments": 1164, "total_fragments": 1164, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "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": "conclusive" }, { "accession": "GCF_001426995.1", "gtdb_species": "s__Microbacterium sp001426995", "ani": 94.3529, "matched_fragments": 1035, "total_fragments": 1164, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.85", "min_intra_species_ani": "97.85", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001423615.1", "gtdb_species": "s__Microbacterium sp001423615", "ani": 86.2847, "matched_fragments": 896, "total_fragments": 1164, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.40", "min_intra_species_ani": "98.40", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_017876435.1", "gtdb_species": "s__Microbacterium phyllosphaerae", "ani": 86.0823, "matched_fragments": 878, "total_fragments": 1164, "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_001423485.1", "gtdb_species": "s__Microbacterium sp001423485", "ani": 86.0642, "matched_fragments": 889, "total_fragments": 1164, "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_018613995.1", "gtdb_species": "s__Microbacterium sp018613995", "ani": 85.5291, "matched_fragments": 629, "total_fragments": 1164, "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_002024885.1", "gtdb_species": "s__Microbacterium foliorum_A", "ani": 85.4281, "matched_fragments": 861, "total_fragments": 1164, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.09", "min_intra_species_ani": "97.34", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001889265.1", "gtdb_species": "s__Microbacterium sp001889265", "ani": 85.36, "matched_fragments": 849, "total_fragments": 1164, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.81", "min_intra_species_ani": "98.68", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_006385575.1", "gtdb_species": "s__Microbacterium foliorum_B", "ani": 85.2781, "matched_fragments": 875, "total_fragments": 1164, "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_900105205.1", "gtdb_species": "s__Microbacterium hydrocarbonoxydans", "ani": 85.0765, "matched_fragments": 858, "total_fragments": 1164, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "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_904831005.1", "gtdb_species": "s__Microbacterium hydrocarbonoxydans_B", "ani": 84.3783, "matched_fragments": 848, "total_fragments": 1164, "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_001049495.1", "gtdb_species": "s__Microbacterium sp001049495", "ani": 84.1945, "matched_fragments": 803, "total_fragments": 1164, "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_004794515.1", "gtdb_species": "s__Microbacterium sp004794515", "ani": 83.3895, "matched_fragments": 721, "total_fragments": 1164, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Microbacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.344, "cell_length": -0.025, "doubling_h": null, "growth_tmp": 27.0, "optimum_tmp": 29.019, "optimum_ph": 7.341, "genome_size": 3607208.0, "gc_content": 68.7, "coding_genes": 3264.0, "rRNA16S_genes": 1.75, "tRNA_genes": 45.0, "gram_stain": 1.0, "sporulation": 0.111, "motility": 0.289, "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": 0.977, "coccus_cell_shape": 0.022, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Microbacterium", "foliorum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }