{ "type": "genome", "identifier": "GCF_003970735.1", "organism": "Silicimonas algicola", "title": "Silicimonas algicola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "CNRS", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003970735.1", "bioproject": "PRJNA224116", "biosample": "SAMN10396653", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1826607", "species_taxid": "1826607", "organism_name": "Silicimonas algicola", "infraspecific_name": "strain=KC90", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/25", "asm_name": "ASM397073v1", "asm_submitter": "CNRS", "gbrs_paired_asm": "GCA_003970735.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/970/735/GCF_003970735.1_ASM397073v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4351658", "genome_size_ungapped": "4351658", "gc_percent": "65.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003970735.1-RS_2024_04_01", "annotation_date": "2024-04-01", "total_gene_count": "4384", "protein_coding_gene_count": "4282", "non_coding_gene_count": "48", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-25", "dateModified": "2018-12-25", "datePublished": "2018-12-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Silicimonas algicola" ], "sample_taxid": [ "1826607" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "France:Western English Channel" ], "sample_host_location_id": [], "data_size": "1.200 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)": "4351658", "Number of Sequences": "1", "Longest Sequences (bp)": "4351658", "N50 (bp)": "4351658", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.3", "Number of CDSs": "4353", "Average Protein Length": "299.5", "Coding Ratio (%)": "89.9", "Number of rRNAs": "3", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Silicimonas algicola", "strain": "strain=KC90", "accession": "GCA_003970735.1", "taxid": 1826607, "species_taxid": 1826607, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1450, "total_fragments": 1450, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Silicimonas algicola", "strain": "strain=DSM 103371", "accession": "GCA_003148765.1", "taxid": 1826607, "species_taxid": 1826607, "relation_to_type": "type", "validated": true, "ani": 99.984, "matched_fragments": 1431, "total_fragments": 1450, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Wenxinia marina", "strain": "strain=DSM 24838", "accession": "GCA_000379485.1", "taxid": 390641, "species_taxid": 390641, "relation_to_type": "type", "validated": true, "ani": 78.8387, "matched_fragments": 481, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Wenxinia marina", "strain": "strain=DSM 24838", "accession": "GCA_000836695.1", "taxid": 390641, "species_taxid": 390641, "relation_to_type": "type", "validated": true, "ani": 78.8302, "matched_fragments": 483, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Wenxinia marina", "strain": "strain=CGMCC 1.6105", "accession": "GCA_014645075.1", "taxid": 390641, "species_taxid": 390641, "relation_to_type": "type", "validated": true, "ani": 78.8031, "matched_fragments": 488, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kangsaoukella pontilimi", "strain": "strain=GH1-50", "accession": "GCA_009830125.1", "taxid": 2691042, "species_taxid": 2691042, "relation_to_type": "type", "validated": true, "ani": 78.6782, "matched_fragments": 468, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cereibacter azotoformans", "strain": "strain=KA25", "accession": "GCA_003050905.1", "taxid": 43057, "species_taxid": 43057, "relation_to_type": "type", "validated": true, "ani": 78.2532, "matched_fragments": 377, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum tesquicola", "strain": "strain=A-36s", "accession": "GCA_024128855.1", "taxid": 540254, "species_taxid": 540254, "relation_to_type": "type", "validated": true, "ani": 78.098, "matched_fragments": 341, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum strictum", "strain": "strain=DSM 11289", "accession": "GCA_009649175.1", "taxid": 58314, "species_taxid": 58314, "relation_to_type": "type", "validated": true, "ani": 78.0851, "matched_fragments": 343, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseivivax lentus", "strain": "strain=DSM 29430", "accession": "GCA_900156805.1", "taxid": 633194, "species_taxid": 633194, "relation_to_type": "type", "validated": true, "ani": 78.0634, "matched_fragments": 397, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sinirhodobacter hankyongi", "strain": "strain=BO-81", "accession": "GCA_003664585.1", "taxid": 2294033, "species_taxid": 2294033, "relation_to_type": "type", "validated": true, "ani": 78.0311, "matched_fragments": 357, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseitranquillus sediminis", "strain": "strain=MCCB 386", "accession": "GCA_016918935.1", "taxid": 2809051, "species_taxid": 2809051, "relation_to_type": "type", "validated": true, "ani": 78.0123, "matched_fragments": 365, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovulum euryhalinum", "strain": "strain=DSM 4868", "accession": "GCA_004342445.1", "taxid": 35805, "species_taxid": 35805, "relation_to_type": "type", "validated": true, "ani": 78.0004, "matched_fragments": 401, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus binzhouensis", "strain": "strain=wg1", "accession": "GCA_016446475.1", "taxid": 2796149, "species_taxid": 2796149, "relation_to_type": "type", "validated": true, "ani": 77.9571, "matched_fragments": 321, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola antarcticus", "strain": "strain=Ar-45", "accession": "GCA_002786285.1", "taxid": 1247613, "species_taxid": 1247613, "relation_to_type": "type", "validated": true, "ani": 77.9374, "matched_fragments": 371, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola antarcticus", "strain": "strain=CGMCC 1.12662", "accession": "GCA_900215355.1", "taxid": 1247613, "species_taxid": 1247613, "relation_to_type": "type", "validated": true, "ani": 77.8213, "matched_fragments": 363, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Allgaiera indica", "strain": "strain=CGMCC 1.10859", "accession": "GCA_014653075.1", "taxid": 765699, "species_taxid": 765699, "relation_to_type": "type", "validated": true, "ani": 77.6275, "matched_fragments": 341, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alexandriicola marinus", "strain": "strain=LZ-14", "accession": "GCA_004000435.1", "taxid": 2081710, "species_taxid": 2081710, "relation_to_type": "type", "validated": true, "ani": 77.6237, "matched_fragments": 298, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseibacterium elongatum", "strain": "strain=DFL-43", "accession": "GCA_000590925.1", "taxid": 159346, "species_taxid": 159346, "relation_to_type": "type", "validated": true, "ani": 77.6195, "matched_fragments": 302, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thioclava atlantica", "strain": "strain=13D2W-2", "accession": "GCA_000737065.1", "taxid": 1317124, "species_taxid": 1317124, "relation_to_type": "type", "validated": true, "ani": 77.6175, "matched_fragments": 313, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hwanghaeicola aestuarii", "strain": "strain=DSM 22009", "accession": "GCA_003253995.1", "taxid": 568105, "species_taxid": 568105, "relation_to_type": "type", "validated": true, "ani": 77.6, "matched_fragments": 304, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tabrizicola algicola", "strain": "strain=ETT8", "accession": "GCA_010915705.1", "taxid": 2709381, "species_taxid": 2709381, "relation_to_type": "type", "validated": true, "ani": 77.0245, "matched_fragments": 238, "total_fragments": 1450, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003148765.1", "gtdb_species": "s__Silicimonas algicola", "ani": 99.984, "matched_fragments": 1431, "total_fragments": 1450, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Silicimonas", "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": "conclusive" }, { "accession": "GCF_002869745.1", "gtdb_species": "s__Oceaniglobus roseus", "ani": 78.9339, "matched_fragments": 507, "total_fragments": 1450, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Oceaniglobus", "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_000379485.1", "gtdb_species": "s__Wenxinia marina", "ani": 78.8387, "matched_fragments": 481, "total_fragments": 1450, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Wenxinia", "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": 3, "status": "-" }, { "accession": "GCA_009830125.1", "gtdb_species": "s__GH1-50 sp009830125", "ani": 78.6918, "matched_fragments": 467, "total_fragments": 1450, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__GH1-50", "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_012395815.1", "gtdb_species": "s__Roseicyclus sp012395815", "ani": 78.6518, "matched_fragments": 464, "total_fragments": 1450, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Roseicyclus", "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_003605175.1", "gtdb_species": "s__IMCC34051 sp003605175", "ani": 78.5106, "matched_fragments": 462, "total_fragments": 1450, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__IMCC34051", "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_008933605.1", "gtdb_species": "s__Albidovulum sp008933605", "ani": 78.2983, "matched_fragments": 358, "total_fragments": 1450, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Albidovulum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", 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