{ "type": "genome", "identifier": "GCA_013698015.1", "organism": "Rubrobacteraceae bacterium", "title": "Rubrobacteraceae bacterium", "description": "derived from metagenome; fragmented assembly; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Monash University", "publication": [ {} ], "properties": { "assembly_accession": "GCA_013698015.1", "bioproject": "PRJNA630822", "biosample": "SAMN15052016", "wgs_master": "JACCVT000000000.1", "refseq_category": "na", "taxid": "2740537", "species_taxid": "2740537", "organism_name": "Rubrobacteraceae bacterium", "infraspecific_name": "", "isolate": "MGR_bin133", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/26", "asm_name": "ASM1369801v1", "submitter": "Monash University", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/013/698/015/GCA_013698015.1_ASM1369801v1", "excluded_from_refseq": "derived from metagenome; fragmented assembly; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-26", "dateModified": "2020-07-26", "datePublished": "2020-07-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Rubrobacteraceae bacterium" ], "sample_taxid": [ "2740537" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica: Mackay Glacier regions" ], "sample_host_location_id": [], "data_size": "0.843 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 47.69, "contamination": 0.46, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2935065", "Number of Sequences": "889", "Longest Sequences (bp)": "18458", "N50 (bp)": "3347", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.4", "Number of CDSs": "2458", "Average Protein Length": "230.3", "Coding Ratio (%)": "57.9", "Number of rRNAs": "0", "Number of tRNAs": "34", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rubrobacter tropicus", "strain": "strain=SCSIO 52909", "accession": "GCA_011492945.1", "taxid": 2653851, "species_taxid": 2653851, "relation_to_type": "type", "validated": true, "ani": 78.0672, "matched_fragments": 149, "total_fragments": 445, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrobacter marinus", "strain": "strain=SCSIO 52915", "accession": "GCA_011492965.1", "taxid": 2653852, "species_taxid": 2653852, "relation_to_type": "type", "validated": true, "ani": 77.6998, "matched_fragments": 98, "total_fragments": 445, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrobacter radiotolerans", "strain": "strain=DSM 5868", "accession": "GCA_900175965.1", "taxid": 42256, "species_taxid": 42256, "relation_to_type": "type", "validated": true, "ani": 76.9787, "matched_fragments": 58, "total_fragments": 445, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrobacter aplysinae", "strain": "strain=RV113", "accession": "GCA_001029505.1", "taxid": 909625, "species_taxid": 909625, "relation_to_type": "type", "validated": true, "ani": 76.6775, "matched_fragments": 69, "total_fragments": 445, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 47.69, "contamination": 0.46, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_902806095.1", "gtdb_species": "s__SCSIO-52909 sp902806095", "ani": 80.9914, "matched_fragments": 242, "total_fragments": 445, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Rubrobacteria;o__Rubrobacterales;f__Rubrobacteraceae;g__SCSIO-52909", "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": "GCA_902812425.1", "gtdb_species": "s__SCSIO-52909 sp902812425", "ani": 80.6781, "matched_fragments": 211, "total_fragments": 445, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Rubrobacteria;o__Rubrobacterales;f__Rubrobacteraceae;g__SCSIO-52909", "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": "GCA_013698525.1", "gtdb_species": "s__SCSIO-52909 sp013698525", "ani": 80.6652, "matched_fragments": 166, "total_fragments": 445, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Rubrobacteria;o__Rubrobacterales;f__Rubrobacteraceae;g__SCSIO-52909", "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": "GCA_016781725.1", "gtdb_species": "s__SCSIO-52909 sp016781725", "ani": 79.2458, "matched_fragments": 122, "total_fragments": 445, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Rubrobacteria;o__Rubrobacterales;f__Rubrobacteraceae;g__SCSIO-52909", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.84", "min_intra_species_ani": "98.84", "mean_intra_species_af": "0.72", "min_intra_species_af": "0.72", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_902806085.1", "gtdb_species": "s__SCSIO-52909 sp902806085", "ani": 78.2817, "matched_fragments": 161, "total_fragments": 445, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Rubrobacteria;o__Rubrobacterales;f__Rubrobacteraceae;g__SCSIO-52909", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_902806075.1", "gtdb_species": "s__SCSIO-52915 sp902806075", "ani": 77.3051, "matched_fragments": 57, "total_fragments": 445, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Rubrobacteria;o__Rubrobacterales;f__Rubrobacteraceae;g__SCSIO-52915", "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": -0.055, "cell_length": 0.1, "doubling_h": 0.532, "growth_tmp": 41.853, "optimum_tmp": 59.833, "optimum_ph": 7.875, "genome_size": 3242668.383, "gc_content": 68.326, "coding_genes": 3107.5, "rRNA16S_genes": 1.0, "tRNA_genes": 45.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, 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