{ "type": "genome", "identifier": "GCF_001715535.1", "organism": "Spiroplasma helicoides", "title": "Spiroplasma helicoides", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Academia Sinica", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001715535.1", "bioproject": "PRJNA224116", "biosample": "SAMN05578878", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "216938", "species_taxid": "216938", "organism_name": "Spiroplasma helicoides", "infraspecific_name": "strain=TABS-2", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/08/29", "asm_name": "ASM171553v1", "asm_submitter": "Academia Sinica", "gbrs_paired_asm": "GCA_001715535.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/715/535/GCF_001715535.1_ASM171553v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1326546", "genome_size_ungapped": "1326546", "gc_percent": "27.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001715535.1-RS_2024_12_13", "annotation_date": "2024-12-13", "total_gene_count": "1188", "protein_coding_gene_count": "1145", "non_coding_gene_count": "35", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-08-29", "dateModified": "2016-08-29", "datePublished": "2016-08-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Spiroplasma helicoides" ], "sample_taxid": [ "216938" ], "sample_host_organism": [ "Tabanus abactor" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Ardmore, Oklahoma" ], "sample_host_location_id": [], "data_size": "0.354 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)": "1326546", "Number of Sequences": "1", "Longest Sequences (bp)": "1326546", "N50 (bp)": "1326546", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "26.8", "Number of CDSs": "2227", "Average Protein Length": "136.4", "Coding Ratio (%)": "68.7", "Number of rRNAs": "3", "Number of tRNAs": "29", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Spiroplasma helicoides", "strain": "strain=TABS-2", "accession": "GCA_001715535.1", "taxid": 216938, "species_taxid": 216938, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 442, "total_fragments": 442, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Spiroplasma tabanidicola", "strain": "strain=TAUS-1", "accession": "GCA_009730595.1", "taxid": 324079, "species_taxid": 324079, "relation_to_type": "type", "validated": true, "ani": 79.1167, "matched_fragments": 151, "total_fragments": 442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma chinense", "strain": "strain=CCH", "accession": "GCA_008086545.1", "taxid": 216932, "species_taxid": 216932, "relation_to_type": "type", "validated": true, "ani": 78.9797, "matched_fragments": 122, "total_fragments": 442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma culicicola", "strain": "strain=AES-1", "accession": "GCA_000565175.1", "taxid": 216935, "species_taxid": 216935, "relation_to_type": "type", "validated": true, "ani": 78.9639, "matched_fragments": 132, "total_fragments": 442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma floricola", "strain": "strain=23-6", "accession": "GCA_002813555.1", "taxid": 216937, "species_taxid": 216937, "relation_to_type": "type", "validated": true, "ani": 78.7132, "matched_fragments": 117, "total_fragments": 442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma clarkii", "strain": "strain=CN-5", "accession": "GCA_002163565.1", "taxid": 2139, "species_taxid": 2139, "relation_to_type": "type", "validated": true, "ani": 78.0729, "matched_fragments": 87, "total_fragments": 442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma clarkii", "strain": "strain=CN-5", "accession": "GCA_002795265.1", "taxid": 2139, "species_taxid": 2139, "relation_to_type": "type", "validated": true, "ani": 78.0399, "matched_fragments": 85, "total_fragments": 442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma turonicum", "strain": "strain=Tab4c", "accession": "GCA_001513715.1", "taxid": 216946, "species_taxid": 216946, "relation_to_type": "type", "validated": true, "ani": 77.6216, "matched_fragments": 106, "total_fragments": 442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma turonicum", "strain": "strain=Tab4c", "accession": "GCA_001262715.1", "taxid": 216946, "species_taxid": 216946, "relation_to_type": "type", "validated": true, "ani": 77.5652, "matched_fragments": 106, "total_fragments": 442, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mycoplasma mycoides subsp. mycoides", "strain": "strain=PG1", "accession": "GCA_000011445.1", "taxid": 2103, "species_taxid": 2102, "relation_to_type": "type", "validated": true, "ani": 76.7101, "matched_fragments": 57, "total_fragments": 442, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001715535.1", "gtdb_species": 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"d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Mycoplasmataceae;g__Spiroplasma_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.91", "min_intra_species_ani": "99.91", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000439435.1", "gtdb_species": "s__Spiroplasma_A taiwanense", "ani": 78.0177, "matched_fragments": 111, "total_fragments": 442, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Mycoplasmataceae;g__Spiroplasma_A", "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_001262715.1", "gtdb_species": "s__Spiroplasma_A turonicum", "ani": 77.5989, "matched_fragments": 104, "total_fragments": 442, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Mycoplasmataceae;g__Spiroplasma_A", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.752, "cell_length": null, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 30.107, "optimum_ph": 5.033, "genome_size": 1326548.0, "gc_content": 26.8, "coding_genes": 1143.0, "rRNA16S_genes": 1.0, "tRNA_genes": 29.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "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": 0.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.142, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.857 }, "_genome_taxon": [ "Spiroplasma", "helicoides" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }