{ "type": "genome", "identifier": "GCF_900104455.1", "organism": "Dendrosporobacter quercicolus", "title": "Dendrosporobacter quercicolus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900104455.1", "bioproject": "PRJNA224116", "biosample": "SAMN04488502", "wgs_master": "FNHB00000000.1", "refseq_category": "reference genome", "taxid": "146817", "species_taxid": "146817", "organism_name": "Dendrosporobacter quercicolus", "infraspecific_name": "strain=DSM 1736", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/21", "asm_name": "IMG-taxon 2622736508 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900104455.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/104/455/GCF_900104455.1_IMG-taxon_2622736508_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4130502", "genome_size_ungapped": "4125757", "gc_percent": "49.000000", "replicon_count": "0", "scaffold_count": "28", "contig_count": "28", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900104455.1-RS_2024_04_07", "annotation_date": "2024-04-07", "total_gene_count": "3812", "protein_coding_gene_count": "3707", "non_coding_gene_count": "82", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-21", "dateModified": "2016-10-21", "datePublished": "2016-10-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Dendrosporobacter quercicolus" ], "sample_taxid": [ "146817" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.169 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)": "4130502", "Number of Sequences": "28", "Longest Sequences (bp)": "1321792", "N50 (bp)": "273780", "Gap Ratio (%)": "0.114877", "GCcontent (%)": "48.9", "Number of CDSs": "3728", "Average Protein Length": "316.7", "Coding Ratio (%)": "85.7", "Number of rRNAs": "3", "Number of tRNAs": "67", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Dendrosporobacter quercicolus", "strain": "strain=DSM 1736", "accession": "GCA_900104455.1", "taxid": 146817, "species_taxid": 146817, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1359, "total_fragments": 1362, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Dendrosporobacter quercicolus", "strain": "strain=DSM 1736", "accession": "GCA_013303165.1", "taxid": 146817, "species_taxid": 146817, "relation_to_type": "type", "validated": true, "ani": 99.9927, "matched_fragments": 1354, "total_fragments": 1362, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sporomusa sphaeroides", "strain": "strain=DSM 2875", "accession": "GCA_023660125.1", "taxid": 47679, "species_taxid": 47679, "relation_to_type": "type", "validated": true, "ani": 77.2524, "matched_fragments": 114, "total_fragments": 1362, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900104455.1", "gtdb_species": "s__Dendrosporobacter quercicolus", "ani": 100.0, "matched_fragments": 1359, "total_fragments": 1362, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__DSM-1736;f__Dendrosporobacteraceae;g__Dendrosporobacter", "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": "conclusive" }, { "accession": "GCA_003990955.1", "gtdb_species": "s__Dendrosporobacter sp003990955", "ani": 77.8691, "matched_fragments": 286, "total_fragments": 1362, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__DSM-1736;f__Dendrosporobacteraceae;g__Dendrosporobacter", "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": "GCA_012523975.1", "gtdb_species": "s__JAAYSF01 sp012523975", "ani": 76.8583, "matched_fragments": 63, "total_fragments": 1362, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__JAAYSF01;f__JAAYSF01;g__JAAYSF01", "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_900476375.1", "gtdb_species": "s__Lucifera butyrica", "ani": 76.3487, "matched_fragments": 91, "total_fragments": 1362, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Sporomusales;f__UPPP01;g__Lucifera", "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_900542835.1", "gtdb_species": "s__Anaerosporomusa sp900542835", "ani": 76.3201, "matched_fragments": 74, "total_fragments": 1362, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Sporomusales_A;f__Acetonemaceae;g__Anaerosporomusa", "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": -0.302, "cell_length": 0.477, "doubling_h": null, "growth_tmp": 35.0, "optimum_tmp": 27.5, "optimum_ph": null, "genome_size": 4130502.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 1.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Dendrosporobacter", "quercicolus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }