{ "type": "genome", "identifier": "GCF_023914155.1", "organism": "Solitalea agri", "title": "Solitalea agri", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Chung-Ang University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_023914155.1", "bioproject": "PRJNA224116", "biosample": "SAMN29154599", "wgs_master": "JAMWYS000000000.1", "refseq_category": "reference genome", "taxid": "2953739", "species_taxid": "2953739", "organism_name": "Solitalea agri", "infraspecific_name": "strain=MAHUQ-68", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/06/26", "asm_name": "ASM2391415v1", "asm_submitter": "Chung-Ang University", "gbrs_paired_asm": "GCA_023914155.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/023/914/155/GCF_023914155.1_ASM2391415v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4250173", "genome_size_ungapped": "4250129", "gc_percent": "38.000000", "replicon_count": "0", "scaffold_count": "68", "contig_count": "68", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_023914155.1-RS_2024_04_22", "annotation_date": "2024-04-22", "total_gene_count": "3654", "protein_coding_gene_count": "3579", "non_coding_gene_count": "62", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-06-26", "dateModified": "2022-06-26", "datePublished": "2022-06-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Solitalea agri" ], "sample_taxid": [ "2953739" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "1.201 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)": "4250173", "Number of Sequences": "68", "Longest Sequences (bp)": "554084", "N50 (bp)": "247993", "Gap Ratio (%)": "0.001035", "GCcontent (%)": "38.0", "Number of CDSs": "3549", "Average Protein Length": "339.0", "Coding Ratio (%)": "84.9", "Number of rRNAs": "0", "Number of tRNAs": "55", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Solitalea longa", "strain": "strain=HR-AV", "accession": "GCA_002920915.1", "taxid": 2079460, "species_taxid": 2079460, "relation_to_type": "type", "validated": true, "ani": 83.6408, "matched_fragments": 934, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Solitalea canadensis", "strain": "strain=DSM 3403", "accession": "GCA_000242635.3", "taxid": 995, "species_taxid": 995, "relation_to_type": "type", "validated": true, "ani": 78.4883, "matched_fragments": 398, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Solitalea koreensis", "strain": "strain=DSM 21342", "accession": "GCA_900182575.1", "taxid": 543615, "species_taxid": 543615, "relation_to_type": "type", "validated": true, "ani": 78.3261, "matched_fragments": 172, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter frigidisoli", "strain": "strain=RP-3-11", "accession": "GCA_004331675.1", "taxid": 2530455, "species_taxid": 2530455, "relation_to_type": "type", "validated": true, "ani": 77.0405, "matched_fragments": 51, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter chinensis", "strain": "strain=JDX94", "accession": "GCA_003339865.1", "taxid": 2282421, "species_taxid": 2282421, "relation_to_type": "type", "validated": true, "ani": 76.5737, "matched_fragments": 67, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter kyonggii", "strain": "strain=K-4-11-1", "accession": "GCA_004310665.1", "taxid": 1926871, "species_taxid": 1926871, "relation_to_type": "type", "validated": true, "ani": 76.4654, "matched_fragments": 66, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter miscanthi", "strain": "strain=RS10", "accession": "GCA_003315595.1", "taxid": 2259170, "species_taxid": 2259170, "relation_to_type": "type", "validated": true, "ani": 76.4637, "matched_fragments": 60, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter xixiisoli", "strain": "strain=CGMCC 1.12803", "accession": "GCA_900215335.1", "taxid": 1476464, "species_taxid": 1476464, "relation_to_type": "type", "validated": true, "ani": 76.41, "matched_fragments": 59, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter zeae", "strain": "strain=CGMCC 1.15287", "accession": "GCA_014641575.1", "taxid": 1737356, "species_taxid": 1737356, "relation_to_type": "type", "validated": true, "ani": 76.3894, "matched_fragments": 61, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter zeae", "strain": "strain=DSM 100774", "accession": "GCA_014196715.1", "taxid": 1737356, "species_taxid": 1737356, "relation_to_type": "type", "validated": true, "ani": 76.3894, "matched_fragments": 61, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mucilaginibacter polytrichastri", "strain": "strain=RG4-7", "accession": "GCA_001911425.1", "taxid": 1302689, "species_taxid": 1302689, "relation_to_type": "type", "validated": true, "ani": 76.3831, "matched_fragments": 53, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pedobacter xixiisoli", "strain": "strain=S27", "accession": "GCA_005925365.1", "taxid": 1476464, "species_taxid": 1476464, "relation_to_type": "type", "validated": true, "ani": 76.3758, "matched_fragments": 60, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudopedobacter saltans", "strain": "strain=DSM 12145", "accession": "GCA_000190735.2", "taxid": 151895, "species_taxid": 151895, "relation_to_type": "type", "validated": true, "ani": 76.3414, "matched_fragments": 52, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mucilaginibacter polytrichastri", "strain": "strain=DSM 26907", "accession": "GCA_900116355.1", "taxid": 1302689, "species_taxid": 1302689, "relation_to_type": "type", "validated": true, "ani": 76.2219, "matched_fragments": 54, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mucilaginibacter conchicola", "strain": "strain=MYSH2", "accession": "GCA_003432115.1", "taxid": 2303333, "species_taxid": 2303333, "relation_to_type": "type", "validated": true, "ani": 76.1328, "matched_fragments": 51, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mucilaginibacter endophyticus", "strain": "strain=RS1", "accession": "GCA_003351025.1", "taxid": 2675003, "species_taxid": 2675003, "relation_to_type": "type", "validated": true, "ani": 75.8986, "matched_fragments": 64, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002920915.1", "gtdb_species": "s__Solitalea longa", "ani": 83.6408, "matched_fragments": 934, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Solitalea", "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_000242635.2", "gtdb_species": "s__Solitalea canadensis", "ani": 78.4883, "matched_fragments": 398, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Solitalea", "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_900182575.1", "gtdb_species": "s__Solitalea koreensis", "ani": 78.3261, "matched_fragments": 172, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Solitalea", "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_014692875.1", "gtdb_species": "s__Pedobacter sp011759615", "ani": 76.682, "matched_fragments": 65, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Pedobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.16", "min_intra_species_ani": "98.15", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003054145.1", "gtdb_species": "s__Pedobacter sp003054145", "ani": 76.4726, "matched_fragments": 69, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Pedobacter", "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_003315595.1", "gtdb_species": "s__Pedobacter miscanthi", "ani": 76.4637, "matched_fragments": 60, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Pedobacter", "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_003688475.1", "gtdb_species": "s__Pedobacter sp003688475", "ani": 76.4624, "matched_fragments": 53, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Pedobacter", "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_001911425.1", "gtdb_species": "s__Mucilaginibacter polytrichastri", "ani": 76.4154, "matched_fragments": 52, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Mucilaginibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900215335.1", "gtdb_species": "s__Pedobacter xixiisoli", "ani": 76.41, "matched_fragments": 59, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Pedobacter", "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_000708265.2", "gtdb_species": "s__Pedobacter sp000708265", "ani": 76.3596, "matched_fragments": 63, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Pedobacter", "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_000190735.1", "gtdb_species": "s__Pelobium saltans", "ani": 76.3414, "matched_fragments": 52, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Pelobium", "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_009765905.1", "gtdb_species": "s__Mucilaginibacter sp009765905", "ani": 75.9521, "matched_fragments": 56, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Mucilaginibacter", "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_003351025.1", "gtdb_species": "s__Mucilaginibacter endophyticus", "ani": 75.8986, "matched_fragments": 64, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Sphingobacteriales;f__Sphingobacteriaceae;g__Mucilaginibacter", "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": -0.329, "cell_length": 0.747, "doubling_h": null, "growth_tmp": 27.0, "optimum_tmp": 27.5, "optimum_ph": 7.0, "genome_size": 4272129.125, "gc_content": 37.3, "coding_genes": 4290.0, "rRNA16S_genes": 4.0, "tRNA_genes": 59.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.5, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.5, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Solitalea", "agri" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }