{ "type": "genome", "identifier": "GCF_004382795.1", "organism": "Cumulibacter soli", "title": "Cumulibacter soli", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Nanjng Agricultural University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004382795.1", "bioproject": "PRJNA224116", "biosample": "SAMN11082161", "wgs_master": "SMSG00000000.1", "refseq_category": "reference genome", "taxid": "2546344", "species_taxid": "2546344", "organism_name": "Cumulibacter soli", "infraspecific_name": "strain=G-1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/26", "asm_name": "ASM438279v1", "asm_submitter": "Nanjng Agricultural University", "gbrs_paired_asm": "GCA_004382795.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/382/795/GCF_004382795.1_ASM438279v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3943817", "genome_size_ungapped": "3943817", "gc_percent": "64.000000", "replicon_count": "0", "scaffold_count": "20", "contig_count": "20", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004382795.1-RS_2024_04_19", "annotation_date": "2024-04-19", "total_gene_count": "3680", "protein_coding_gene_count": "3602", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-03-26", "dateModified": "2019-03-26", "datePublished": "2019-03-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Cumulibacter soli" ], "sample_taxid": [ "2546344" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.098 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)": "3943817", "Number of Sequences": "20", "Longest Sequences (bp)": "804540", "N50 (bp)": "597283", "Gap Ratio (%)": "0.000051", "GCcontent (%)": "64.2", "Number of CDSs": "3665", "Average Protein Length": "325.2", "Coding Ratio (%)": "90.7", "Number of rRNAs": "2", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Cumulibacter soli", "strain": "strain=G-1", "accession": "GCA_004382795.1", "taxid": 2546344, "species_taxid": 2546344, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1303, "total_fragments": 1305, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Antricoccus suffuscus", "strain": "strain=DSM 100065", "accession": "GCA_003003235.1", "taxid": 1629062, "species_taxid": 1629062, "relation_to_type": "type", "validated": true, "ani": 77.1479, "matched_fragments": 181, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus rhodochrous", "strain": "strain=NCTC10210", "accession": "GCA_900187265.1", "taxid": 1829, "species_taxid": 1829, "relation_to_type": "suspected-type", "validated": true, "ani": 76.5547, "matched_fragments": 112, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus kroppenstedtii", "strain": "strain=DSM 44908", "accession": "GCA_001646725.1", "taxid": 293050, "species_taxid": 293050, "relation_to_type": "type", "validated": true, "ani": 76.5433, "matched_fragments": 95, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus rhodochrous", "strain": "strain=DSM 43241", "accession": "GCA_001646825.1", "taxid": 1829, "species_taxid": 1829, "relation_to_type": "suspected-type", "validated": true, "ani": 76.5081, "matched_fragments": 112, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinokineospora xionganensis", "strain": "strain=HBU206404", "accession": "GCA_014323725.1", "taxid": 2684470, "species_taxid": 2684470, "relation_to_type": "type", "validated": true, "ani": 76.3514, "matched_fragments": 119, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis australiensis", "strain": "strain=DSM 44671", "accession": "GCA_900119165.1", "taxid": 546364, "species_taxid": 546364, "relation_to_type": "type", "validated": true, "ani": 76.2745, "matched_fragments": 169, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora deserti", "strain": "strain=13K206", "accession": "GCA_003236335.1", "taxid": 2070366, "species_taxid": 2070366, "relation_to_type": "type", "validated": true, "ani": 76.262, "matched_fragments": 116, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides szechwanensis", "strain": "strain=NBRC 108562", "accession": "GCA_007992395.1", "taxid": 1005944, "species_taxid": 1005944, "relation_to_type": "type", "validated": true, "ani": 76.2497, "matched_fragments": 113, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulomonas biazotea", "strain": "strain=NBRC12680", "accession": "GCA_004306155.1", "taxid": 1709, "species_taxid": 1709, "relation_to_type": "type", "validated": true, "ani": 76.2125, "matched_fragments": 104, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis circi", "strain": "strain=DSM 45561", "accession": "GCA_003385235.1", "taxid": 871959, "species_taxid": 871959, "relation_to_type": "type", "validated": true, "ani": 76.1715, "matched_fragments": 138, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis methanolica", "strain": "strain=239", "accession": "GCA_000739085.1", "taxid": 1814, "species_taxid": 1814, "relation_to_type": "type", "validated": true, "ani": 76.1471, "matched_fragments": 161, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides szechwanensis", "strain": "strain=CGMCC 1.11147", "accession": "GCA_900103935.1", "taxid": 1005944, "species_taxid": 1005944, "relation_to_type": "type", "validated": true, "ani": 76.1336, "matched_fragments": 113, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis nivea", "strain": "strain=CFH S0261", "accession": "GCA_004522235.1", "taxid": 1644109, "species_taxid": 1644109, "relation_to_type": "type", "validated": true, "ani": 76.0891, "matched_fragments": 157, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinocatenispora sera", "strain": "strain=NRRL B-24477", "accession": "GCA_000720965.1", "taxid": 390989, "species_taxid": 390989, "relation_to_type": "type", "validated": true, "ani": 76.0669, "matched_fragments": 149, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prauserella muralis", "strain": "strain=DSM 45305", "accession": "GCA_007993965.1", "taxid": 588067, "species_taxid": 588067, "relation_to_type": "type", "validated": true, "ani": 76.0664, "matched_fragments": 143, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis tolypomycina", "strain": "strain=DSM 44544", "accession": "GCA_900105945.1", "taxid": 208445, "species_taxid": 208445, "relation_to_type": "type", "validated": true, "ani": 76.0639, "matched_fragments": 173, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinocatenispora sera", "strain": "strain=NBRC 101916", "accession": "GCA_018324685.1", "taxid": 390989, "species_taxid": 390989, "relation_to_type": "type", "validated": true, "ani": 76.0547, "matched_fragments": 148, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis eburnea", "strain": "strain=GLM-1", "accession": "GCA_003937945.1", "taxid": 2267691, "species_taxid": 2267691, "relation_to_type": "type", "validated": true, "ani": 76.0029, "matched_fragments": 173, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis saalfeldensis", "strain": "strain=DSM 44993", "accession": "GCA_900110575.1", "taxid": 394193, "species_taxid": 394193, "relation_to_type": "type", "validated": true, "ani": 75.9281, "matched_fragments": 160, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces mediolanus", "strain": "strain=JCM 3346", "accession": "GCA_014648575.1", "taxid": 41986, "species_taxid": 41986, "relation_to_type": "type", "validated": true, "ani": 75.9003, "matched_fragments": 93, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis jejuensis", "strain": "strain=NRRL B-24427", "accession": "GCA_000717335.1", "taxid": 330084, "species_taxid": 330084, "relation_to_type": "type", "validated": true, "ani": 75.8733, "matched_fragments": 142, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Agromyces lapidis", "strain": "strain=JCM 14321", "accession": "GCA_009749405.1", "taxid": 279574, "species_taxid": 279574, "relation_to_type": "type", "validated": true, "ani": 75.7739, "matched_fragments": 99, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004382795.1", "gtdb_species": "s__Cumulibacter soli", "ani": 100.0, "matched_fragments": 1303, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Antricoccaceae;g__Cumulibacter", "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_900292035.1", "gtdb_species": "s__Cumulibacter sp900292035", "ani": 78.6987, "matched_fragments": 385, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Antricoccaceae;g__Cumulibacter", "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_009602465.1", "gtdb_species": "s__Cumulibacter manganitolerans", "ani": 78.4513, "matched_fragments": 470, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Antricoccaceae;g__Cumulibacter", "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_009834025.1", "gtdb_species": "s__Epidermidibacterium keratini", "ani": 78.0066, "matched_fragments": 305, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Antricoccaceae;g__Epidermidibacterium", "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_003003235.1", "gtdb_species": "s__Antricoccus suffuscus", "ani": 77.1479, "matched_fragments": 181, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Antricoccaceae;g__Antricoccus", "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_014218295.1", "gtdb_species": "s__Mycobacterium litorale_B", "ani": 76.2874, "matched_fragments": 116, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Mycobacterium", "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_900103935.1", "gtdb_species": "s__Nocardioides szechwanensis", "ani": 76.1343, "matched_fragments": 113, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Nocardioidaceae;g__Nocardioides", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_012530535.1", "gtdb_species": "s__Yonghaparkia sp012530535", "ani": 76.0848, "matched_fragments": 74, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Yonghaparkia", "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_016861975.1", "gtdb_species": "s__Actinocatenispora rupis", "ani": 76.0627, "matched_fragments": 150, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinocatenispora", "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_014174495.1", "gtdb_species": "s__Amycolatopsis echigonensis", "ani": 76.0591, "matched_fragments": 153, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.67", "min_intra_species_ani": "98.67", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018324685.1", "gtdb_species": "s__Actinocatenispora sera", "ani": 76.0547, "matched_fragments": 148, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinocatenispora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003937945.1", "gtdb_species": "s__Amycolatopsis eburnea", "ani": 76.0018, "matched_fragments": 173, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Amycolatopsis", "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_004959775.1", "gtdb_species": "s__Agromyces sp004959775", "ani": 75.7049, "matched_fragments": 101, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Microbacteriaceae;g__Agromyces", "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": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Cumulibacter", "soli" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }