{ "type": "genome", "identifier": "GCA_902782855.1", "organism": "uncultured Corynebacterium sp.", "title": "uncultured Corynebacterium sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "THE ROSLIN INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCA_902782855.1", "bioproject": "PRJEB31266", "biosample": "SAMEA6150946", "wgs_master": "CACZOO000000000.1", "refseq_category": "na", "taxid": "159447", "species_taxid": "159447", "organism_name": "uncultured Corynebacterium sp.", "infraspecific_name": "", "isolate": "RUG12810", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/02/17", "asm_name": "Rumen uncultured genome RUG12810", "submitter": "THE ROSLIN INSTITUTE", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/782/855/GCA_902782855.1_Rumen_uncultured_genome_RUG12810", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-02-17", "dateModified": "2020-02-17", "datePublished": "2020-02-17", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Corynebacterium sp." ], "sample_taxid": [ "159447" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom" ], "sample_host_location_id": [], "data_size": "0.842 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 96.99, "contamination": 0.52, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3072769", "Number of Sequences": "373", "Longest Sequences (bp)": "50264", "N50 (bp)": "11434", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.2", "Number of CDSs": "2489", "Average Protein Length": "323.6", "Coding Ratio (%)": "78.6", "Number of rRNAs": "0", "Number of tRNAs": "55", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Corynebacterium variabile", "strain": "strain=NBRC 15286", "accession": "GCA_006539825.1", "taxid": 1727, "species_taxid": 1727, "relation_to_type": "type", "validated": true, "ani": 86.376, "matched_fragments": 666, "total_fragments": 835, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium terpenotabidum", "strain": "strain=Y-11", "accession": "GCA_000418365.1", "taxid": 89154, "species_taxid": 89154, "relation_to_type": "type", "validated": true, "ani": 83.1689, "matched_fragments": 547, "total_fragments": 835, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium nuruki", "strain": "strain=S6-4", "accession": "GCA_007970465.1", "taxid": 1032851, "species_taxid": 1032851, "relation_to_type": "type", "validated": true, "ani": 82.6874, "matched_fragments": 533, "total_fragments": 835, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium nuruki", "strain": "strain=S6-4", "accession": "GCA_000213935.2", "taxid": 1032851, "species_taxid": 1032851, "relation_to_type": "type", "validated": true, "ani": 82.5548, "matched_fragments": 532, "total_fragments": 835, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium neomassiliense", "strain": "strain=Marseille-P3888", "accession": "GCA_900626215.1", "taxid": 2079482, "species_taxid": 2079482, "relation_to_type": "type", "validated": true, "ani": 81.6633, "matched_fragments": 555, "total_fragments": 835, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corynebacterium glyciniphilum", "strain": "strain=AJ 3170", "accession": "GCA_000626675.1", "taxid": 1404244, "species_taxid": 1404244, "relation_to_type": "type", "validated": true, "ani": 79.1693, "matched_fragments": 371, "total_fragments": 835, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kocuria flava", "strain": "strain=HO-9041", "accession": "GCA_001482365.1", "taxid": 446860, "species_taxid": 446860, "relation_to_type": "type", "validated": true, "ani": 76.2056, "matched_fragments": 117, "total_fragments": 835, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planotetraspora phitsanulokensis", "strain": "strain=NBRC 104273", "accession": "GCA_016863295.1", "taxid": 575192, "species_taxid": 575192, "relation_to_type": "type", "validated": true, "ani": 75.503, "matched_fragments": 108, "total_fragments": 835, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinocatenispora sera", "strain": "strain=NRRL B-24477", "accession": "GCA_000720965.1", "taxid": 390989, "species_taxid": 390989, "relation_to_type": "type", "validated": true, "ani": 75.3192, "matched_fragments": 120, "total_fragments": 835, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 96.99, "contamination": 0.52, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_902782855.1", "gtdb_species": "s__Corynebacterium sp902782855", "ani": 100.0, "matched_fragments": 826, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "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_006539825.1", "gtdb_species": "s__Corynebacterium variabile", "ani": 86.376, "matched_fragments": 666, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.53", "min_intra_species_ani": "98.15", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.86", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_000418365.1", "gtdb_species": "s__Corynebacterium terpenotabidum", "ani": 83.1842, "matched_fragments": 546, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "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_007970465.1", "gtdb_species": "s__Corynebacterium nuruki", "ani": 82.6493, "matched_fragments": 535, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.35", "min_intra_species_ani": "98.70", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.98", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900049755.1", "gtdb_species": "s__Corynebacterium provencense", "ani": 81.5898, "matched_fragments": 558, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.28", "min_intra_species_ani": "98.82", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_019114135.1", "gtdb_species": "s__Corynebacterium avicola", "ani": 80.7525, "matched_fragments": 447, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "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_007673095.1", "gtdb_species": "s__Corynebacterium sp002363255", "ani": 79.6115, "matched_fragments": 378, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.44", "min_intra_species_ani": "97.44", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000626675.1", "gtdb_species": "s__Corynebacterium glyciniphilum", "ani": 79.1565, "matched_fragments": 372, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Corynebacterium", "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_001482365.1", "gtdb_species": "s__Kocuria flava", "ani": 76.2208, "matched_fragments": 116, "total_fragments": 835, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.78", "min_intra_species_ani": "97.61", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.275, "cell_length": 0.068, "doubling_h": -0.089, "growth_tmp": 35.111, "optimum_tmp": 35.173, "optimum_ph": 7.292, "genome_size": 2639223.511, "gc_content": 59.791, "coding_genes": 2390.094, "rRNA16S_genes": 4.282, "tRNA_genes": 52.979, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.75, "facultative_respiration": 0.231, "anaerobic_respiration": 0.063, "aerobic_respiration": 0.705, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.985, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.014, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Actinomycetota", "c__Actinomycetes", "o__Mycobacteriales", "f__Mycobacteriaceae", "g__Corynebacterium", "s__Corynebacterium sp902782855" ], "_genome_taxon": [ "uncultured", "Corynebacterium", "sp.", "d__Bacteria", "p__Actinomycetota", "c__Actinomycetes", "o__Mycobacteriales", "f__Mycobacteriaceae", "g__Corynebacterium", "s__Corynebacterium sp902782855", "Bacteria", "Actinomycetota", "Actinomycetes", "Mycobacteriales", "Mycobacteriaceae", "Corynebacterium", "Corynebacterium", "sp902782855" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }