{ "type": "genome", "identifier": "GCF_028368935.1", "organism": "Sorangium aterium", "title": "Sorangium aterium", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Mississippi", "publication": [ {} ], "properties": { "assembly_accession": "GCF_028368935.1", "bioproject": "PRJNA224116", "biosample": "SAMN31713175", "wgs_master": "JAQNDK000000000.1", "refseq_category": "reference genome", "taxid": "2995308", "species_taxid": "2995308", "organism_name": "Sorangium aterium", "infraspecific_name": "strain=WIWO2", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/01/31", "asm_name": "ASM2836893v1", "asm_submitter": "University of Mississippi", "gbrs_paired_asm": "GCA_028368935.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/028/368/935/GCF_028368935.1_ASM2836893v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "13472481", "genome_size_ungapped": "13472481", "gc_percent": "71.000000", "replicon_count": "0", "scaffold_count": "7", "contig_count": "7", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_028368935.1-RS_2024_09_03", "annotation_date": "2024-09-03", "total_gene_count": "10079", "protein_coding_gene_count": "9858", "non_coding_gene_count": "80", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-01-31", "dateModified": "2023-01-31", "datePublished": "2023-01-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Sorangium aterium" ], "sample_taxid": [ "2995308" ], "sample_host_organism": [ "NA" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: pleasant prairie, WI" ], "sample_host_location_id": [], "data_size": "3.594 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)": "13472481", "Number of Sequences": "7", "Longest Sequences (bp)": "4030638", "N50 (bp)": "1903842", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "71.1", "Number of CDSs": "10300", "Average Protein Length": "379.4", "Coding Ratio (%)": "87.0", "Number of rRNAs": "12", "Number of tRNAs": "85", "Number of CRISPRs": "10" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Polyangium aurulentum", "strain": "strain=SDU3-1", "accession": "GCA_005144635.2", "taxid": 2567896, "species_taxid": 2567896, "relation_to_type": "type", "validated": true, "ani": 77.3758, "matched_fragments": 1506, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polyangium spumosum", "strain": "strain=DSM 14734", "accession": "GCA_009649845.1", "taxid": 889282, "species_taxid": 889282, "relation_to_type": "type", "validated": true, "ani": 77.3036, "matched_fragments": 1428, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polyangium fumosum", "strain": "strain=DSM 14668", "accession": "GCA_005144585.1", "taxid": 889272, "species_taxid": 889272, "relation_to_type": "neotype", "validated": true, "ani": 77.2894, "matched_fragments": 1415, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chondromyces crocatus", "strain": "strain=Cm c5", "accession": "GCA_001189295.1", "taxid": 52, "species_taxid": 52, "relation_to_type": "type", "validated": true, "ani": 77.0879, "matched_fragments": 1118, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Labilithrix luteola", "strain": "strain=DSM 27648", "accession": "GCA_001263205.1", "taxid": 1391654, "species_taxid": 1391654, "relation_to_type": "type", "validated": true, "ani": 75.776, "matched_fragments": 737, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio sulfodismutans", "strain": "strain=DSM 3696", "accession": "GCA_013376455.1", "taxid": 63561, "species_taxid": 63561, "relation_to_type": "type", "validated": true, "ani": 75.4493, "matched_fragments": 63, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Myxococcus vastator", "strain": "strain=AM301", "accession": "GCA_010894475.1", "taxid": 2709664, "species_taxid": 2709664, "relation_to_type": "type", "validated": true, "ani": 75.1652, "matched_fragments": 437, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corallococcus soli", "strain": "strain=ZKHCc1 1396", "accession": "GCA_014930455.1", "taxid": 2710757, "species_taxid": 2710757, "relation_to_type": "type", "validated": true, "ani": 75.0779, "matched_fragments": 534, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Desulfovibrio sulfodismutans", "strain": "strain=DSM 3696", "accession": "GCA_010499425.1", "taxid": 63561, "species_taxid": 63561, "relation_to_type": "type", "validated": true, "ani": 75.0718, "matched_fragments": 59, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiribacter aquaticus", "strain": "strain=SP30", "accession": "GCA_007625215.1", "taxid": 1935996, "species_taxid": 1935996, "relation_to_type": "type", "validated": true, "ani": 75.0201, "matched_fragments": 81, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agrococcus carbonis", "strain": "strain=DSM 22965", "accession": "GCA_900104705.1", "taxid": 684552, "species_taxid": 684552, "relation_to_type": "type", "validated": true, "ani": 74.967, "matched_fragments": 461, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Inmirania thermothiophila", "strain": "strain=DSM 100275", "accession": "GCA_003751635.1", "taxid": 1750597, "species_taxid": 1750597, "relation_to_type": "type", "validated": true, "ani": 74.8697, "matched_fragments": 352, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas pseudosanguinis", "strain": "strain=DSM 19512", "accession": "GCA_014196255.1", "taxid": 413712, "species_taxid": 413712, "relation_to_type": "type", "validated": true, "ani": 74.8557, "matched_fragments": 202, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmatimonas groenlandica", "strain": "strain=TET16", "accession": "GCA_013004105.1", "taxid": 2732249, "species_taxid": 2732249, "relation_to_type": "type", "validated": true, "ani": 74.8377, "matched_fragments": 176, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Elioraea thermophila", "strain": "strain=YIM 72297", "accession": "GCA_003336755.1", "taxid": 2185104, "species_taxid": 2185104, "relation_to_type": "type", "validated": true, "ani": 74.8318, "matched_fragments": 271, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmatimonas aurantiaca", "strain": "strain=T-27", "accession": "GCA_000010305.1", "taxid": 173480, "species_taxid": 173480, "relation_to_type": "type", "validated": true, "ani": 74.8169, "matched_fragments": 98, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ancylobacter sonchi", "strain": "strain=VKM B-3145", "accession": "GCA_018390695.1", "taxid": 1937790, "species_taxid": 1937790, "relation_to_type": "type", "validated": true, "ani": 74.7909, "matched_fragments": 394, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alcanivorax dieselolei", "strain": "strain=CGMCC 1.3690", "accession": "GCA_014644575.1", "taxid": 285091, "species_taxid": 285091, "relation_to_type": "type", "validated": true, "ani": 74.7871, "matched_fragments": 82, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Halovivax ruber", "strain": "strain=XH-70", "accession": "GCA_000328525.1", "taxid": 387341, "species_taxid": 387341, "relation_to_type": "type", "validated": true, "ani": 74.625, "matched_fragments": 112, "total_fragments": 4487, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000067165.1", "gtdb_species": "s__Sorangium cellulosum_B", "ani": 94.6446, "matched_fragments": 3600, "total_fragments": 4487, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Polyangia;o__Polyangiales;f__Polyangiaceae;g__Sorangium", "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_000418325.1", "gtdb_species": "s__Sorangium cellulosum_D", "ani": 88.7047, "matched_fragments": 3369, "total_fragments": 4487, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Polyangia;o__Polyangiales;f__Polyangiaceae;g__Sorangium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.45", "min_intra_species_ani": "95.45", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.82", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004135735.1", "gtdb_species": "s__Sorangium cellulosum_F", "ani": 86.4226, "matched_fragments": 2761, "total_fragments": 4487, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Polyangia;o__Polyangiales;f__Polyangiaceae;g__Sorangium", "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_002950945.1", "gtdb_species": "s__Sorangium cellulosum_E", "ani": 86.2603, "matched_fragments": 3136, "total_fragments": 4487, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Polyangia;o__Polyangiales;f__Polyangiaceae;g__Sorangium", "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_005144635.1", "gtdb_species": "s__Polyangium sp005144635", "ani": 77.3243, "matched_fragments": 1481, "total_fragments": 4487, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Polyangia;o__Polyangiales;f__Polyangiaceae;g__Polyangium", "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_009649845.1", "gtdb_species": "s__Polyangium spumosum", "ani": 77.3034, "matched_fragments": 1428, "total_fragments": 4487, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Polyangia;o__Polyangiales;f__Polyangiaceae;g__Polyangium", "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_000601485.1", "gtdb_species": "s__Chondromyces apiculatus", "ani": 77.1685, "matched_fragments": 1275, "total_fragments": 4487, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Polyangia;o__Polyangiales;f__Polyangiaceae;g__Chondromyces", "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_001931535.1", "gtdb_species": "s__Minicystis rosea", "ani": 76.9991, "matched_fragments": 1641, "total_fragments": 4487, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Polyangia;o__Polyangiales;f__Polyangiaceae;g__Minicystis", "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_002994655.1", "gtdb_species": "s__Corynebacterium sp002994655", "ani": 74.7058, "matched_fragments": 103, "total_fragments": 4487, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.097, "cell_length": 0.477, "doubling_h": 0.778, "growth_tmp": 31.0, "optimum_tmp": 28.0, "optimum_ph": 9.5, "genome_size": 12740812.722, "gc_content": 71.74, "coding_genes": 9823.833, "rRNA16S_genes": 4.0, "tRNA_genes": 59.75, "gram_stain": 0.0, "sporulation": null, "motility": 1.0, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "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": [ "Sorangium", "aterium" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }