{ "type": "genome", "identifier": "GCF_009834985.1", "organism": "Deinococcus xianganensis", "title": "Deinococcus xianganensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "School of Life Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009834985.1", "bioproject": "PRJNA224116", "biosample": "SAMN13351212", "wgs_master": "WVHK00000000.1", "refseq_category": "reference genome", "taxid": "1507289", "species_taxid": "1507289", "organism_name": "Deinococcus xianganensis", "infraspecific_name": "strain=Y35", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/01/08", "asm_name": "ASM983498v1", "asm_submitter": "School of Life Sciences", "gbrs_paired_asm": "GCA_009834985.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/834/985/GCF_009834985.1_ASM983498v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4192478", "genome_size_ungapped": "4191891", "gc_percent": "70.000000", "replicon_count": "0", "scaffold_count": "245", "contig_count": "245", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009834985.1-RS_2024_03_16", "annotation_date": "2024-03-16", "total_gene_count": "4233", "protein_coding_gene_count": "4095", "non_coding_gene_count": "57", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-01-08", "dateModified": "2020-01-08", "datePublished": "2020-01-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Deinococcus xianganensis" ], "sample_taxid": [ "1507289" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: lake" ], "sample_host_location_id": [], "data_size": "1.138 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)": "4192478", "Number of Sequences": "245", "Longest Sequences (bp)": "150883", "N50 (bp)": "40195", "Gap Ratio (%)": "0.015766", "GCcontent (%)": "69.9", "Number of CDSs": "4023", "Average Protein Length": "295.8", "Coding Ratio (%)": "85.2", "Number of rRNAs": "1", "Number of tRNAs": "52", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Deinococcus xianganensis", "strain": "strain=Y35", "accession": "GCA_009834985.1", "taxid": 1507289, "species_taxid": 1507289, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1273, "total_fragments": 1294, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Deinococcus grandis", "strain": "strain=ATCC 43672", "accession": "GCA_001485435.1", "taxid": 57498, "species_taxid": 57498, "relation_to_type": "type", "validated": true, "ani": 95.6476, "matched_fragments": 1096, "total_fragments": 1294, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Deinococcus daejeonensis", "strain": "strain=JCM 16918", "accession": "GCA_014647175.1", "taxid": 1007098, "species_taxid": 1007098, "relation_to_type": "type", "validated": true, "ani": 95.1361, "matched_fragments": 1032, "total_fragments": 1294, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Deinococcus soli (ex Cha et al. 2016)", "strain": "strain=N5", "accession": "GCA_001007995.1", "taxid": 1309411, "species_taxid": 1309411, "relation_to_type": "type", "validated": true, "ani": 94.2034, "matched_fragments": 942, "total_fragments": 1294, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus saudiensis", "strain": "strain=CGMCC 1.15089", "accession": "GCA_014640655.1", "taxid": 1765963, "species_taxid": 1765963, "relation_to_type": "type", "validated": true, "ani": 93.9564, "matched_fragments": 1109, "total_fragments": 1294, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus sedimenti", "strain": "strain=JCM 31405", "accession": "GCA_014648135.1", "taxid": 1867090, "species_taxid": 1867090, "relation_to_type": "type", "validated": true, "ani": 91.9363, "matched_fragments": 1015, "total_fragments": 1294, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus radiotolerans", "strain": "strain=JCM 19173", "accession": "GCA_014647435.1", "taxid": 1309407, "species_taxid": 1309407, "relation_to_type": "type", "validated": true, "ani": 89.9673, "matched_fragments": 998, "total_fragments": 1294, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus koreensis", "strain": "strain=SJW1-2", "accession": "GCA_002901445.1", "taxid": 2054903, "species_taxid": 2054903, "relation_to_type": "type", "validated": true, "ani": 80.3214, "matched_fragments": 728, "total_fragments": 1294, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus metallilatus", "strain": "strain=DSM 105434", "accession": "GCA_014202095.1", "taxid": 1211322, "species_taxid": 1211322, "relation_to_type": "type", "validated": true, "ani": 79.5271, "matched_fragments": 609, "total_fragments": 1294, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus budaensis", "strain": "strain=DSM 101791", "accession": "GCA_014201885.1", "taxid": 1665626, "species_taxid": 1665626, "relation_to_type": "type", "validated": true, "ani": 79.4978, "matched_fragments": 588, "total_fragments": 1294, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, 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91.8934, "matched_fragments": 1017, "total_fragments": 1294, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Deinococcaceae;g__Deinococcus", "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_014647435.1", "gtdb_species": "s__Deinococcus radiotolerans", "ani": 89.9808, "matched_fragments": 997, "total_fragments": 1294, "gtdb_taxonomy": "d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Deinococcaceae;g__Deinococcus", "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_002017875.1", "gtdb_species": "s__Deinococcus sp002017875", "ani": 86.7465, "matched_fragments": 932, "total_fragments": 1294, 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"d__Bacteria;p__Deinococcota;c__Deinococci;o__Deinococcales;f__Deinococcaceae;g__Deinococcus", "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": 0.051, "cell_length": 0.196, "doubling_h": 0.111, "growth_tmp": 28.619, "optimum_tmp": 29.066, "optimum_ph": 7.156, "genome_size": 4107692.879, "gc_content": 65.729, "coding_genes": 3268.576, "rRNA16S_genes": 3.545, "tRNA_genes": 48.236, "gram_stain": 0.977, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.028, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.971, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.3, "coccus_cell_shape": 0.7, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Deinococcus", "xianganensis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }