{ "type": "genome", "identifier": "GCF_009909145.1", "organism": "Corallococcus silvisoli", "title": "Corallococcus silvisoli", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Guangdong Institute of Microbiology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009909145.1", "bioproject": "PRJNA224116", "biosample": "SAMN13781729", "wgs_master": "JAAAPJ000000000.1", "refseq_category": "reference genome", "taxid": "2697031", "species_taxid": "2697031", "organism_name": "Corallococcus silvisoli", "infraspecific_name": "strain=c25j21", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/01/20", "asm_name": "ASM990914v1", "asm_submitter": "Guangdong Institute of Microbiology", "gbrs_paired_asm": "GCA_009909145.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/909/145/GCF_009909145.1_ASM990914v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "9232290", "genome_size_ungapped": "9232290", "gc_percent": "70.500000", "replicon_count": "0", "scaffold_count": "62", "contig_count": "62", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009909145.1-RS_2024_12_16", "annotation_date": "2024-12-16", "total_gene_count": "7440", "protein_coding_gene_count": "7332", "non_coding_gene_count": "60", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-01-20", "dateModified": "2020-01-20", "datePublished": "2020-01-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Corallococcus silvisoli" ], "sample_taxid": [ "2697031" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Chebaling National Nature Reserve, Guangdong Province" ], "sample_host_location_id": [], "data_size": "2.474 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "9232290", "Number of Sequences": "62", "Longest Sequences (bp)": "1492573", "N50 (bp)": "424936", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.7", "Number of CDSs": "7537", "Average Protein Length": "368.2", "Coding Ratio (%)": "90.2", "Number of rRNAs": "3", "Number of tRNAs": "66", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Corallococcus silvisoli", "strain": "strain=c25j21", "accession": "GCA_009909145.1", "taxid": 2697031, "species_taxid": 2697031, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 3045, "total_fragments": 3048, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Corallococcus carmarthensis", "strain": "strain=CA043D", "accession": "GCA_003611695.1", "taxid": 2316728, "species_taxid": 2316728, "relation_to_type": "type", "validated": true, "ani": 90.2729, "matched_fragments": 2341, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corallococcus exercitus", "strain": "strain=AB043A", "accession": "GCA_003611585.1", "taxid": 2316736, "species_taxid": 2316736, "relation_to_type": "type", "validated": true, "ani": 90.248, "matched_fragments": 2128, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corallococcus aberystwythensis", "strain": "strain=AB050A", "accession": "GCA_003612165.1", "taxid": 2316722, "species_taxid": 2316722, "relation_to_type": "type", "validated": true, "ani": 89.9648, "matched_fragments": 2223, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corallococcus coralloides", "strain": "strain=DSM 2259", "accession": "GCA_000255295.1", "taxid": 184914, "species_taxid": 184914, "relation_to_type": "type", "validated": true, "ani": 89.9551, "matched_fragments": 2462, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corallococcus exiguus", "strain": "strain=DSM 14696", "accession": "GCA_009909105.1", "taxid": 83462, "species_taxid": 83462, "relation_to_type": "type", "validated": true, "ani": 89.8155, "matched_fragments": 2468, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corallococcus interemptor", "strain": "strain=AB047A", "accession": "GCA_003668875.1", "taxid": 2316720, "species_taxid": 2316720, "relation_to_type": "type", "validated": true, "ani": 89.8078, "matched_fragments": 2243, "total_fragments": 3048, "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": 89.1352, "matched_fragments": 2264, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corallococcus llansteffanensis", "strain": "strain=CA051B", "accession": "GCA_003612055.1", "taxid": 2316731, "species_taxid": 2316731, "relation_to_type": "type", "validated": true, "ani": 89.0693, "matched_fragments": 1974, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corallococcus sicarius", "strain": "strain=CA040B", "accession": "GCA_003611735.1", "taxid": 2316726, "species_taxid": 2316726, "relation_to_type": "type", "validated": true, "ani": 88.8173, "matched_fragments": 2112, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Corallococcus terminator", "strain": "strain=CA054A", "accession": "GCA_003611635.1", "taxid": 2316733, "species_taxid": 2316733, "relation_to_type": "type", "validated": true, "ani": 88.5987, "matched_fragments": 2161, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Longimicrobium terrae", "strain": "strain=CB-286315", "accession": "GCA_013000925.1", "taxid": 1639882, "species_taxid": 1639882, "relation_to_type": "type", "validated": true, "ani": 75.16, "matched_fragments": 360, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Longimicrobium terrae", "strain": "strain=DSM 29007", "accession": "GCA_014202995.1", "taxid": 1639882, "species_taxid": 1639882, "relation_to_type": "type", "validated": true, "ani": 75.1277, "matched_fragments": 370, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paucidesulfovibrio longus", "strain": "strain=DSM 6739", "accession": "GCA_000420485.1", "taxid": 889, "species_taxid": 889, "relation_to_type": "type", "validated": true, "ani": 75.1088, "matched_fragments": 101, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodopila globiformis", "strain": "strain=DSM 161", "accession": "GCA_002937115.1", "taxid": 1071, "species_taxid": 1071, "relation_to_type": "type", "validated": true, "ani": 75.0242, "matched_fragments": 199, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Steroidobacter soli", "strain": "strain=JW-3", "accession": "GCA_004138485.1", "taxid": 2497877, "species_taxid": 2497877, "relation_to_type": "type", "validated": true, "ani": 74.8862, "matched_fragments": 114, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas fennica", "strain": "strain=K101", "accession": "GCA_003034225.1", "taxid": 114404, "species_taxid": 114404, "relation_to_type": "type", "validated": true, "ani": 74.8569, "matched_fragments": 171, "total_fragments": 3048, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009909145.1", "gtdb_species": "s__Corallococcus sp009909145", "ani": 100.0, "matched_fragments": 3045, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.47", "min_intra_species_ani": "99.47", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_003611695.1", "gtdb_species": "s__Corallococcus carmarthensis", "ani": 90.2896, "matched_fragments": 2337, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "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_003611585.1", "gtdb_species": "s__Corallococcus exercitus", "ani": 90.2477, "matched_fragments": 2128, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.95", "min_intra_species_ani": "95.08", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.82", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_017302985.1", "gtdb_species": "s__Corallococcus macrosporus_A", "ani": 90.1242, "matched_fragments": 2395, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "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_000255295.1", "gtdb_species": "s__Corallococcus coralloides", "ani": 89.983, "matched_fragments": 2457, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.87", "min_intra_species_ani": "95.41", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_003612165.1", "gtdb_species": "s__Corallococcus aberystwythensis", "ani": 89.9818, "matched_fragments": 2220, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "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_017309135.1", "gtdb_species": "s__Corallococcus sp017309135", "ani": 89.8661, "matched_fragments": 2441, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "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_003668875.1", "gtdb_species": "s__Corallococcus interemptor", "ani": 89.8379, "matched_fragments": 2238, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.20", "min_intra_species_ani": "99.20", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009909105.1", "gtdb_species": "s__Corallococcus exiguus", "ani": 89.7972, "matched_fragments": 2471, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.29", "min_intra_species_ani": "96.40", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 16, "status": "-" }, { "accession": "GCF_014930455.1", "gtdb_species": "s__Corallococcus sp014930455", "ani": 89.1588, "matched_fragments": 2259, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "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_003611675.1", "gtdb_species": "s__Corallococcus sp003611675", "ani": 88.8982, "matched_fragments": 2077, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "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_003611735.1", "gtdb_species": "s__Corallococcus sicarius", "ani": 88.8012, "matched_fragments": 2114, "total_fragments": 3048, "gtdb_taxonomy": "d__Bacteria;p__Myxococcota;c__Myxococcia;o__Myxococcales;f__Myxococcaceae;g__Corallococcus", "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": -0.155, "cell_length": 0.477, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": null, "optimum_ph": null, "genome_size": 10080614.25, "gc_content": 69.9, "coding_genes": 7941.0, "rRNA16S_genes": 3.0, "tRNA_genes": 59.0, "gram_stain": 0.0, "sporulation": 1.0, "motility": 1.0, "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": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Corallococcus", "silvisoli" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }