{ "type": "genome", "identifier": "GCF_023516495.1", "organism": "Sphingomonas anseongensis", "title": "Sphingomonas anseongensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Hankyong National University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_023516495.1", "bioproject": "PRJNA224116", "biosample": "SAMN24662250", "wgs_master": "JAMGBC000000000.1", "refseq_category": "reference genome", "taxid": "2908207", "species_taxid": "2908207", "organism_name": "Sphingomonas anseongensis", "infraspecific_name": "strain=RG327", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/05/22", "asm_name": "ASM2351649v1", "asm_submitter": "Hankyong National University", "gbrs_paired_asm": "GCA_023516495.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/023/516/495/GCF_023516495.1_ASM2351649v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2226119", "genome_size_ungapped": "2226119", "gc_percent": "64.500000", "replicon_count": "0", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_023516495.1-RS_2024_06_03", "annotation_date": "2024-06-03", "total_gene_count": "2297", "protein_coding_gene_count": "2237", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-05-22", "dateModified": "2022-05-22", "datePublished": "2022-05-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphingomonas anseongensis" ], "sample_taxid": [ "2908207" ], "sample_host_organism": [ "missing" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Seoul" ], "sample_host_location_id": [], "data_size": "0.616 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)": "2226119", "Number of Sequences": "2", "Longest Sequences (bp)": "2225188", "N50 (bp)": "2225188", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.6", "Number of CDSs": "2257", "Average Protein Length": "307.4", "Coding Ratio (%)": "93.5", "Number of rRNAs": "3", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sphingomonas sabuli", "strain": "strain=sand1-3", "accession": "GCA_014352855.1", "taxid": 2764186, "species_taxid": 2764186, "relation_to_type": "type", "validated": true, "ani": 79.8905, "matched_fragments": 397, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas segetis", "strain": "strain=YJ09", "accession": "GCA_009720245.1", "taxid": 1104779, "species_taxid": 1104779, "relation_to_type": "type", "validated": true, "ani": 79.7921, "matched_fragments": 359, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas sinipercae", "strain": "strain=HDW15C", "accession": "GCA_011302055.1", "taxid": 2714944, "species_taxid": 2714944, "relation_to_type": "type", "validated": true, "ani": 79.2666, "matched_fragments": 375, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas lutea", "strain": "strain=KCTC 23642", "accession": "GCA_014396785.1", "taxid": 1045317, "species_taxid": 1045317, "relation_to_type": "type", "validated": true, "ani": 79.2455, "matched_fragments": 343, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas lutea", "strain": "strain=KCTC 23642", "accession": "GCA_021497585.1", "taxid": 1045317, "species_taxid": 1045317, "relation_to_type": "type", "validated": true, "ani": 79.2199, "matched_fragments": 349, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas ginkgonis", "strain": "strain=HMF7854", "accession": "GCA_003970925.1", "taxid": 2315330, "species_taxid": 2315330, "relation_to_type": "type", "validated": true, "ani": 79.0244, "matched_fragments": 337, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas mesophila", "strain": "strain=SYSUP0001", "accession": "GCA_003499275.1", "taxid": 2303576, "species_taxid": 2303576, "relation_to_type": "type", "validated": true, "ani": 79.0213, "matched_fragments": 313, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas ginsengisoli An et al. 2013", "strain": "strain=KACC 16858", "accession": "GCA_009363895.1", "taxid": 363835, "species_taxid": 363835, "relation_to_type": "type", "validated": true, "ani": 78.8635, "matched_fragments": 329, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas piscis", "strain": "strain=HDW15B", "accession": "GCA_011300455.1", "taxid": 2714943, "species_taxid": 2714943, "relation_to_type": "type", "validated": true, "ani": 78.7018, "matched_fragments": 260, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas rhizophila", "strain": "strain=KACC 19189", "accession": "GCA_014396585.1", "taxid": 2071607, "species_taxid": 2071607, "relation_to_type": "type", "validated": true, "ani": 78.6725, "matched_fragments": 277, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas astaxanthinifaciens", "strain": "strain=DSM 22298", "accession": "GCA_000711715.1", "taxid": 407019, "species_taxid": 407019, "relation_to_type": "type", "validated": true, "ani": 78.6071, "matched_fragments": 319, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas arenae", "strain": "strain=SYSU D00720", "accession": "GCA_016924655.1", "taxid": 2812555, "species_taxid": 2812555, "relation_to_type": "type", "validated": true, "ani": 78.5335, "matched_fragments": 272, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas horti", "strain": "strain=MAH-20", "accession": "GCA_009753715.1", "taxid": 2682842, "species_taxid": 2682842, "relation_to_type": "type", "validated": true, "ani": 78.041, "matched_fragments": 245, "total_fragments": 741, "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": 77.8221, "matched_fragments": 215, "total_fragments": 741, "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": 77.7768, "matched_fragments": 211, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas folli", "strain": "strain=RHCKR7", "accession": "GCA_019429525.1", "taxid": 2862497, "species_taxid": 2862497, "relation_to_type": "type", "validated": true, "ani": 77.7199, "matched_fragments": 211, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas oleivorans", "strain": "strain=FW-11", "accession": "GCA_003050615.1", "taxid": 1735121, "species_taxid": 1735121, "relation_to_type": "type", "validated": true, "ani": 77.6697, "matched_fragments": 182, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphingomonas turrisvirgatae", "strain": "strain=MCT13", "accession": "GCA_001721295.1", "taxid": 1888892, "species_taxid": 1888892, "relation_to_type": "type", "validated": true, "ani": 77.6424, "matched_fragments": 161, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paracoccus mutanolyticus", "strain": "strain=RSP-02", "accession": "GCA_003285265.1", "taxid": 1499308, "species_taxid": 1499308, "relation_to_type": "type", "validated": true, "ani": 75.9235, "matched_fragments": 65, "total_fragments": 741, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_013817375.1", "gtdb_species": "s__Sphingomicrobium sp013817375", "ani": 79.9848, "matched_fragments": 330, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_014352855.1", "gtdb_species": "s__Sphingomicrobium sp014352855", "ani": 79.8847, "matched_fragments": 397, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_009720245.1", "gtdb_species": "s__Sphingomicrobium sp009720245", "ani": 79.7925, "matched_fragments": 359, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_003097155.1", "gtdb_species": "s__Sphingomicrobium sp003097155", "ani": 79.6665, "matched_fragments": 416, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_000620665.1", "gtdb_species": "s__Sphingomicrobium sp000620665", "ani": 79.5487, "matched_fragments": 380, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_013812825.1", "gtdb_species": "s__Sphingomicrobium sp013812825", "ani": 79.5099, "matched_fragments": 359, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_013812805.1", "gtdb_species": "s__Sphingomicrobium sp013812805", "ani": 79.2733, "matched_fragments": 286, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_011302055.1", "gtdb_species": "s__Sphingomicrobium sinipercae", "ani": 79.2725, "matched_fragments": 375, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_014873795.1", "gtdb_species": "s__Sphingomicrobium sp014873795", "ani": 79.1799, "matched_fragments": 358, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_014873475.1", "gtdb_species": "s__Sphingomicrobium sp014873475", "ani": 79.1, "matched_fragments": 349, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_013361785.1", "gtdb_species": "s__Sphingomicrobium sp013361785", "ani": 78.9586, "matched_fragments": 304, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_019247755.1", "gtdb_species": "s__Sphingomicrobium sp019247755", "ani": 78.7918, "matched_fragments": 254, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_014489495.1", "gtdb_species": "s__Sphingomicrobium daechungense", "ani": 78.7775, "matched_fragments": 320, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_011300455.1", "gtdb_species": "s__Sphingomicrobium piscis", "ani": 78.7096, "matched_fragments": 259, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_000711715.1", "gtdb_species": "s__Sphingomicrobium astaxanthinifaciens", "ani": 78.5948, "matched_fragments": 320, "total_fragments": 741, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Sphingomicrobium", "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_009753715.1", "gtdb_species": "s__Sphingomonas_B horti", "ani": 78.0272, "matched_fragments": 246, "total_fragments": 741, "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": "-" }, { "accession": "GCF_001721295.1", "gtdb_species": "s__Sphingomonas turrisvirgatae", "ani": 77.6305, "matched_fragments": 161, "total_fragments": 741, "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": 77.6225, "matched_fragments": 176, "total_fragments": 741, "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": "GCF_018449795.1", "gtdb_species": "s__Sphingomonas sp018449795", "ani": 77.5251, "matched_fragments": 208, "total_fragments": 741, "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": "-" } ] }, "_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", "anseongensis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }