{ "type": "genome", "identifier": "GCF_009827435.1", "organism": "Croceibacterium salegens", "title": "Croceibacterium salegens", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Zhejiang Sci-Tech University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009827435.1", "bioproject": "PRJNA224116", "biosample": "SAMN13631585", "wgs_master": "WTYM00000000.1", "refseq_category": "reference genome", "taxid": "1737568", "species_taxid": "1737568", "organism_name": "Croceibacterium salegens", "infraspecific_name": "strain=MCCC 1K01500", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/01/02", "asm_name": "ASM982743v1", "asm_submitter": "Zhejiang Sci-Tech University", "gbrs_paired_asm": "GCA_009827435.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/827/435/GCF_009827435.1_ASM982743v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3636778", "genome_size_ungapped": "3636478", "gc_percent": "64.500000", "replicon_count": "0", "scaffold_count": "63", "contig_count": "63", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009827435.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "3583", "protein_coding_gene_count": "3493", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-01-02", "dateModified": "2020-01-02", "datePublished": "2020-01-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Croceibacterium salegens" ], "sample_taxid": [ "1737568" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Hong Kong" ], "sample_host_location_id": [], "data_size": "1.011 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)": "3636778", "Number of Sequences": "63", "Longest Sequences (bp)": "366164", "N50 (bp)": "166465", "Gap Ratio (%)": "0.008249", "GCcontent (%)": "64.6", "Number of CDSs": "3436", "Average Protein Length": "312.6", "Coding Ratio (%)": "88.6", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Tsuneonella rigui", "strain": "strain=KCTC 42620", "accession": "GCA_003958625.1", "taxid": 1708790, "species_taxid": 1708790, "relation_to_type": "type", "validated": true, "ani": 80.1292, "matched_fragments": 455, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter aerophilus", "strain": "strain=Ery1", "accession": "GCA_003581645.1", "taxid": 2306995, "species_taxid": 2306995, "relation_to_type": "type", "validated": true, "ani": 80.0163, "matched_fragments": 427, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter rhizovicinus", "strain": "strain=AY-3R", "accession": "GCA_004135625.1", "taxid": 2268576, "species_taxid": 2268576, "relation_to_type": "type", "validated": true, "ani": 79.9814, "matched_fragments": 425, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tsuneonella amylolytica", "strain": "strain=NS1", "accession": "GCA_003626915.1", "taxid": 2338327, "species_taxid": 2338327, "relation_to_type": "type", "validated": true, "ani": 79.9537, "matched_fragments": 414, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter marinus", "strain": "strain=H32", "accession": "GCA_009827515.1", "taxid": 538382, "species_taxid": 538382, "relation_to_type": "type", "validated": true, "ani": 79.7318, "matched_fragments": 460, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania proteolytica", "strain": "strain=6B39", "accession": "GCA_019711565.1", "taxid": 2867239, "species_taxid": 2867239, "relation_to_type": "type", "validated": true, "ani": 79.7124, "matched_fragments": 422, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tsuneonella troitsensis", "strain": "strain=KMM 6042", "accession": "GCA_003730315.1", "taxid": 292222, "species_taxid": 292222, "relation_to_type": "type", "validated": true, "ani": 79.4004, "matched_fragments": 383, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tsuneonella troitsensis", "strain": "strain=JCM 17037", "accession": "GCA_001441535.1", "taxid": 292222, "species_taxid": 292222, "relation_to_type": "type", "validated": true, "ani": 79.3797, "matched_fragments": 383, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter colymbi", "strain": "strain=JCM 18338", "accession": "GCA_002155685.1", "taxid": 1161202, "species_taxid": 1161202, "relation_to_type": "type", "validated": true, "ani": 79.3094, "matched_fragments": 431, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alteriqipengyuania abyssalis", "strain": "strain=NZ-12B", "accession": "GCA_019857185.1", "taxid": 2860200, "species_taxid": 2860200, "relation_to_type": "type", "validated": true, "ani": 79.2985, "matched_fragments": 378, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tsuneonella deserti", "strain": "strain=CGMCC 1.15959", "accession": "GCA_014644315.1", "taxid": 2035528, "species_taxid": 2035528, "relation_to_type": "type", "validated": true, "ani": 79.2969, "matched_fragments": 360, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania soli", "strain": "strain=6D36", "accession": "GCA_015529805.1", "taxid": 2782568, "species_taxid": 2782568, "relation_to_type": "type", "validated": true, "ani": 79.2959, "matched_fragments": 406, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania gaetbuli", "strain": "strain=DSM 16225", "accession": "GCA_009827315.1", "taxid": 266952, "species_taxid": 266952, "relation_to_type": "type", "validated": true, "ani": 79.244, "matched_fragments": 389, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium flavum", "strain": "strain=NBRC 111647", "accession": "GCA_014230315.1", "taxid": 1778672, "species_taxid": 1778672, "relation_to_type": "type", "validated": true, "ani": 79.2338, "matched_fragments": 395, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania sphaerica", "strain": "strain=GH29", "accession": "GCA_019711595.1", "taxid": 2867243, "species_taxid": 2867243, "relation_to_type": "type", "validated": true, "ani": 79.0376, "matched_fragments": 372, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aurantiacibacter suaedae", "strain": "strain=GH3-15", "accession": "GCA_005434915.1", "taxid": 2545755, "species_taxid": 2545755, "relation_to_type": "type", "validated": true, "ani": 79.0124, "matched_fragments": 411, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania qiaonensis", "strain": "strain=6D47A", "accession": "GCA_019711515.1", "taxid": 2867240, "species_taxid": 2867240, "relation_to_type": "type", "validated": true, "ani": 78.9891, "matched_fragments": 304, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter marensis", "strain": "strain=DSM 21428", "accession": "GCA_001461885.1", "taxid": 543877, "species_taxid": 543877, "relation_to_type": "type", "validated": true, "ani": 78.8544, "matched_fragments": 342, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium marinum", "strain": "strain=CGMCC 1.12918", "accession": "GCA_014640055.1", "taxid": 1514948, "species_taxid": 1514948, "relation_to_type": "type", "validated": true, "ani": 78.8046, "matched_fragments": 353, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium endophyticum", "strain": "strain=CGMCC 1.15095", "accession": "GCA_014640675.1", "taxid": 1955250, "species_taxid": 1955250, "relation_to_type": "type", "validated": true, "ani": 78.8039, "matched_fragments": 350, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium decolorationis", "strain": "strain=502str22", "accession": "GCA_018417475.1", "taxid": 2698673, "species_taxid": 2698673, "relation_to_type": "type", "validated": true, "ani": 78.7928, "matched_fragments": 369, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erythrobacter cryptus", "strain": "strain=DSM 12079", "accession": "GCA_000422985.1", "taxid": 196588, "species_taxid": 196588, "relation_to_type": "type", "validated": true, "ani": 78.6096, "matched_fragments": 347, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Croceibacterium ferulae", "strain": "strain=SX2RGS8", "accession": "GCA_003660445.1", "taxid": 1854641, "species_taxid": 1854641, "relation_to_type": "type", "validated": true, "ani": 78.3305, "matched_fragments": 300, "total_fragments": 1187, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009827435.1", "gtdb_species": "s__Croceibacterium salegens", "ani": 100.0, "matched_fragments": 1184, "total_fragments": 1187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Croceibacterium", "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_011320115.1", "gtdb_species": "s__Croceibacterium segetis", "ani": 81.1822, "matched_fragments": 641, "total_fragments": 1187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Croceibacterium", "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_009828065.1", "gtdb_species": "s__Croceibacterium soli", "ani": 80.9482, "matched_fragments": 572, "total_fragments": 1187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Croceibacterium", "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_016803135.1", "gtdb_species": "s__Pelagerythrobacter sp016803135", "ani": 80.2552, "matched_fragments": 436, "total_fragments": 1187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pelagerythrobacter", "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_002279825.1", "gtdb_species": "s__Croceibacterium sp002279825", "ani": 80.2303, "matched_fragments": 508, "total_fragments": 1187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Croceibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.89", "min_intra_species_ani": "99.89", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003958625.1", "gtdb_species": "s__Tsuneonella rigui", "ani": 80.1829, "matched_fragments": 450, "total_fragments": 1187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Tsuneonella", "ani_circumscription_radius": 95.0, 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"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_001427865.1", "gtdb_species": "s__Croceibacterium sp001427865", "ani": 79.7291, "matched_fragments": 542, "total_fragments": 1187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Croceibacterium", "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_004114695.1", "gtdb_species": "s__Parerythrobacter sp004114695", "ani": 79.7277, "matched_fragments": 417, "total_fragments": 1187, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Parerythrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", 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