{ "type": "genome", "identifier": "GCF_003046315.1", "organism": "Desmospora activa DSM 45169", "title": "Desmospora activa DSM 45169", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003046315.1", "bioproject": "PRJNA224116", "biosample": "SAMN08776720", "wgs_master": "PZZP00000000.1", "refseq_category": "reference genome", "taxid": "1121389", "species_taxid": "500615", "organism_name": "Desmospora activa DSM 45169", "infraspecific_name": "strain=DSM 45169", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/04/09", "asm_name": "ASM304631v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_003046315.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/046/315/GCF_003046315.1_ASM304631v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3793187", "genome_size_ungapped": "3793187", "gc_percent": "49.000000", "replicon_count": "0", "scaffold_count": "16", "contig_count": "16", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003046315.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "3717", "protein_coding_gene_count": "3609", "non_coding_gene_count": "68", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-04-09", "dateModified": "2018-04-09", "datePublished": "2018-04-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Desmospora activa DSM 45169" ], "sample_taxid": [ "1121389" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany:Bonn" ], "sample_host_location_id": [], "data_size": "1.080 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3793187", "Number of Sequences": "16", "Longest Sequences (bp)": "2754541", "N50 (bp)": "2754541", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "49.2", "Number of CDSs": "3662", "Average Protein Length": "295.9", "Coding Ratio (%)": "85.7", "Number of rRNAs": "2", "Number of tRNAs": "52", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Desmospora activa", "strain": "strain=DSM 45169", "accession": "GCA_003046315.1", "taxid": 500615, "species_taxid": 500615, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1255, "total_fragments": 1256, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Kroppenstedtia pulmonis", "strain": "strain=W9323", "accession": "GCA_013265585.1", "taxid": 1380685, "species_taxid": 1380685, "relation_to_type": "type", "validated": true, "ani": 77.1754, "matched_fragments": 85, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paludifilum halophilum", "strain": "strain=DSM 102817", "accession": "GCA_002245355.1", "taxid": 1642702, "species_taxid": 1642702, "relation_to_type": "type", "validated": true, "ani": 77.0117, "matched_fragments": 144, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marinithermofilum abyssi", "strain": "strain=CGMCC 1.15179", "accession": "GCA_014641195.1", "taxid": 1571185, "species_taxid": 1571185, "relation_to_type": "type", "validated": true, "ani": 76.9617, "matched_fragments": 104, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Melghirimyces profundicolus", "strain": "strain=DSM 45787", "accession": "GCA_003054245.1", "taxid": 1242148, "species_taxid": 1242148, "relation_to_type": "type", "validated": true, "ani": 76.9236, "matched_fragments": 102, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Melghirimyces algeriensis", "strain": "strain=DSM 45474", "accession": "GCA_900182565.1", "taxid": 910412, "species_taxid": 910412, "relation_to_type": "type", "validated": true, "ani": 76.7131, "matched_fragments": 83, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marininema mesophilum", "strain": "strain=DSM 45610", "accession": "GCA_900106775.1", "taxid": 1048340, "species_taxid": 1048340, "relation_to_type": "type", "validated": true, "ani": 76.6745, "matched_fragments": 68, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planifilum fimeticola", "strain": "strain=DSM 44946", "accession": "GCA_003001905.1", "taxid": 201975, "species_taxid": 201975, "relation_to_type": "type", "validated": true, "ani": 76.4664, "matched_fragments": 66, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planifilum fulgidum", "strain": "strain=DSM 44945", "accession": "GCA_900113175.1", "taxid": 201973, "species_taxid": 201973, "relation_to_type": "type", "validated": true, "ani": 76.1939, "matched_fragments": 63, "total_fragments": 1256, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003046315.1", "gtdb_species": "s__Desmospora activa", "ani": 100.0, "matched_fragments": 1255, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__DSM-45169;g__Desmospora", "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_013265585.1", "gtdb_species": "s__Kroppenstedtia_A pulmonis", "ani": 77.1754, "matched_fragments": 85, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__DSM-45169;g__Kroppenstedtia_A", "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_002245355.1", "gtdb_species": "s__Paludifilum halophilum", "ani": 77.0117, "matched_fragments": 144, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__DSM-45169;g__Paludifilum", "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_014641195.1", "gtdb_species": "s__Marinithermofilum abyssi", "ani": 76.9617, "matched_fragments": 104, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__DSM-45169;g__Marinithermofilum", "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_003054245.1", "gtdb_species": "s__Melghirimyces profundicolus", "ani": 76.9236, "matched_fragments": 102, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__DSM-45169;g__Melghirimyces", "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_900182565.1", "gtdb_species": "s__Melghirimyces algeriensis", "ani": 76.7125, "matched_fragments": 83, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__DSM-45169;g__Melghirimyces", "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_900106775.1", "gtdb_species": "s__Marininema mesophilum", "ani": 76.6745, "matched_fragments": 68, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__DSM-45169;g__Marininema", "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_016055185.1", "gtdb_species": "s__Paenactinomyces guangxiensis", "ani": 76.487, "matched_fragments": 52, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__Thermoactinomycetaceae;g__Paenactinomyces", "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": "-" }, { "accession": "GCF_003001905.1", "gtdb_species": "s__Planifilum fimeticola", "ani": 76.4664, "matched_fragments": 66, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__DSM-44946;g__Planifilum", "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_900113175.1", "gtdb_species": "s__Planifilum fulgidum", "ani": 76.1939, "matched_fragments": 63, "total_fragments": 1256, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Thermoactinomycetales;f__DSM-44946;g__Planifilum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.34", "min_intra_species_ani": "99.26", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 40.0, "optimum_ph": null, "genome_size": 3793187.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 1.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Desmospora", "activa", "DSM", "45169" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }