{ "type": "genome", "identifier": "GCF_009753715.1", "organism": "Sphingomonas horti", "title": "Sphingomonas horti", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chung-Ang University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009753715.1", "bioproject": "PRJNA224116", "biosample": "SAMN13482995", "wgs_master": "WQMS00000000.1", "refseq_category": "reference genome", "taxid": "2682842", "species_taxid": "2682842", "organism_name": "Sphingomonas horti", "infraspecific_name": "strain=MAH-20", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/12/14", "asm_name": "ASM975371v1", "asm_submitter": "Chung-Ang University", "gbrs_paired_asm": "GCA_009753715.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/753/715/GCF_009753715.1_ASM975371v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3350026", "genome_size_ungapped": "3350026", "gc_percent": "67.500000", "replicon_count": "0", "scaffold_count": "25", "contig_count": "25", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009753715.1-RS_2024_12_13", "annotation_date": "2024-12-13", "total_gene_count": "3343", "protein_coding_gene_count": "3252", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-12-14", "dateModified": "2019-12-14", "datePublished": "2019-12-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphingomonas horti" ], "sample_taxid": [ "2682842" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Anseong-si" ], "sample_host_location_id": [], "data_size": "0.913 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)": "3350026", "Number of Sequences": "25", "Longest Sequences (bp)": "540519", "N50 (bp)": "440320", "Gap Ratio (%)": "0.000119", "GCcontent (%)": "67.3", "Number of CDSs": "3284", "Average Protein Length": "313.5", "Coding Ratio (%)": "92.2", "Number of rRNAs": "3", "Number of tRNAs": "51", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sphingomonas horti", "strain": "strain=MAH-20", "accession": "GCA_009753715.1", "taxid": 2682842, "species_taxid": 2682842, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1104, "total_fragments": 1106, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sphingomonas changbaiensis", "strain": "strain=NBRC 104936", "accession": "GCA_000974765.1", "taxid": 529705, "species_taxid": 529705, "relation_to_type": "type", "validated": true, "ani": 86.1967, "matched_fragments": 800, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas changnyeongensis", "strain": "strain=C33", "accession": "GCA_009913435.1", "taxid": 2698679, "species_taxid": 2698679, "relation_to_type": "type", "validated": true, "ani": 80.5433, "matched_fragments": 529, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas gilva", "strain": "strain=ZDH117", "accession": "GCA_003515075.1", "taxid": 2305907, "species_taxid": 2305907, "relation_to_type": "type", "validated": true, "ani": 79.6494, "matched_fragments": 473, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas flavalba", "strain": "strain=ZLT-5", "accession": "GCA_004796535.1", "taxid": 2559804, "species_taxid": 2559804, "relation_to_type": "type", "validated": true, "ani": 79.5635, "matched_fragments": 494, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas naasensis", "strain": "strain=DSM 100060", "accession": "GCA_011762145.1", "taxid": 1344951, "species_taxid": 1344951, "relation_to_type": "type", "validated": true, "ani": 79.0852, "matched_fragments": 491, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas metalli", "strain": "strain=CGMCC 1.15330", "accession": "GCA_014641735.1", "taxid": 1779358, "species_taxid": 1779358, "relation_to_type": "type", "validated": true, "ani": 79.075, "matched_fragments": 434, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas taxi", "strain": "strain=ATCC 55669", "accession": "GCA_000764535.1", "taxid": 1549858, "species_taxid": 1549858, "relation_to_type": "type", "validated": true, "ani": 79.0315, "matched_fragments": 439, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas colocasiae", "strain": "strain=JCM 31229", "accession": "GCA_019880585.1", "taxid": 1848973, "species_taxid": 1848973, "relation_to_type": "type", "validated": true, "ani": 79.0111, "matched_fragments": 502, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas sanxanigenens", "strain": "strain=NX02", "accession": "GCA_000512205.2", "taxid": 397260, "species_taxid": 397260, "relation_to_type": "type", "validated": true, "ani": 78.9613, "matched_fragments": 452, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingosinicella humi", "strain": "strain=QZX222", "accession": "GCA_003129465.1", "taxid": 2068657, "species_taxid": 2068657, "relation_to_type": "type", "validated": true, "ani": 78.9431, "matched_fragments": 410, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas jinjuensis", "strain": "strain=YC6723", "accession": "GCA_014197105.1", "taxid": 535907, "species_taxid": 535907, "relation_to_type": "type", "validated": true, "ani": 78.9109, "matched_fragments": 435, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas parva", "strain": "strain=17J27-24", "accession": "GCA_004564275.1", "taxid": 2555898, "species_taxid": 2555898, "relation_to_type": "type", "validated": true, "ani": 78.8223, "matched_fragments": 448, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas rubra", "strain": "strain=CGMCC 1.9113", "accession": "GCA_900115745.1", "taxid": 634430, "species_taxid": 634430, "relation_to_type": "type", "validated": true, "ani": 78.7684, "matched_fragments": 426, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas chungangi", "strain": "strain=CGMCC 1.13654", "accession": "GCA_013778325.1", "taxid": 2683589, "species_taxid": 2683589, "relation_to_type": "type", "validated": true, "ani": 78.7588, "matched_fragments": 411, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas pruni", "strain": "strain=NBRC 15498", "accession": "GCA_001598455.1", "taxid": 40683, "species_taxid": 40683, "relation_to_type": "type", "validated": true, "ani": 78.6499, "matched_fragments": 420, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas citri", "strain": "strain=RRHST34", "accession": "GCA_019429485.1", "taxid": 2862499, "species_taxid": 2862499, "relation_to_type": "type", "validated": true, "ani": 78.6366, "matched_fragments": 448, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas corticis", "strain": "strain=36D10-4-7", "accession": "GCA_012035195.1", "taxid": 2722791, "species_taxid": 2722791, "relation_to_type": "type", "validated": true, "ani": 78.6279, "matched_fragments": 446, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas formosensis", "strain": "strain=CC-Nfb-2", "accession": "GCA_009755815.1", "taxid": 861534, "species_taxid": 861534, "relation_to_type": "type", "validated": true, "ani": 78.6064, "matched_fragments": 380, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas cavernae", "strain": "strain=K2R01-6", "accession": "GCA_003590775.1", "taxid": 2320861, "species_taxid": 2320861, "relation_to_type": "type", "validated": true, "ani": 78.5415, "matched_fragments": 439, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas suaedae", "strain": "strain=XS-10", "accession": "GCA_007833215.1", "taxid": 2599297, "species_taxid": 2599297, "relation_to_type": "type", "validated": true, "ani": 78.5311, "matched_fragments": 415, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas vulcanisoli", "strain": "strain=CECT 8804", "accession": "GCA_011761305.1", "taxid": 1658060, "species_taxid": 1658060, "relation_to_type": "type", "validated": true, "ani": 78.1183, "matched_fragments": 326, "total_fragments": 1106, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009753715.1", "gtdb_species": "s__Sphingomonas_B horti", "ani": 100.0, "matched_fragments": 1104, "total_fragments": 1106, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_B", "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_000974765.1", "gtdb_species": "s__Sphingomonas_B changbaiensis", "ani": 86.2016, "matched_fragments": 800, "total_fragments": 1106, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_B", "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_018240865.1", "gtdb_species": "s__Sphingomonas_B sp018240865", "ani": 82.367, "matched_fragments": 657, "total_fragments": 1106, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_B", "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_013044515.1", "gtdb_species": "s__Sphingomonas_B sp013044515", "ani": 82.2177, "matched_fragments": 665, "total_fragments": 1106, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_B", "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_009913435.1", "gtdb_species": "s__Sphingomonas_B sp009913435", "ani": 80.5535, "matched_fragments": 528, "total_fragments": 1106, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_B", "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_002291855.1", "gtdb_species": "s__Sphingomonas_B sp002291855", "ani": 80.2197, "matched_fragments": 380, "total_fragments": 1106, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_B", "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_004796535.1", "gtdb_species": "s__Sphingomonas_L sp004796535", "ani": 79.4994, "matched_fragments": 500, "total_fragments": 1106, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_L", "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_017744835.1", "gtdb_species": "s__Sphingomonas sp017744835", "ani": 79.2692, "matched_fragments": 477, "total_fragments": 1106, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas", "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_003240855.1", "gtdb_species": "s__Sphingomonas_L sanxanigenens_A", "ani": 79.1456, "matched_fragments": 419, "total_fragments": 1106, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomonas_L", "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_005882415.1", "gtdb_species": "s__Allosphingosinicella sp005882415", "ani": 78.4266, "matched_fragments": 340, "total_fragments": 1106, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Allosphingosinicella", "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_002277025.1", "gtdb_species": "s__Sphingopyxis sp002277025", "ani": 78.3443, "matched_fragments": 412, "total_fragments": 1106, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingopyxis", "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": -0.288, "cell_length": 0.14, "doubling_h": null, "growth_tmp": 28.338, "optimum_tmp": 28.407, "optimum_ph": 7.016, "genome_size": 4164406.103, "gc_content": 66.116, "coding_genes": 4592.69, "rRNA16S_genes": 2.285, "tRNA_genes": 51.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.586, "range_salinity": null, "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": 0.98, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.019 }, "_genome_taxon": [ "Sphingomonas", "horti" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }