{ "type": "genome", "identifier": "GCF_002813555.1", "organism": "Spiroplasma floricola 23-6", "title": "Spiroplasma floricola 23-6", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Academia Sinica", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002813555.1", "bioproject": "PRJNA224116", "biosample": "SAMN07981470", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1336749", "species_taxid": "216937", "organism_name": "Spiroplasma floricola 23-6", "infraspecific_name": "strain=23-6", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/12/07", "asm_name": "ASM281355v1", "asm_submitter": "Academia Sinica", "gbrs_paired_asm": "GCA_002813555.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/813/555/GCF_002813555.1_ASM281355v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1284130", "genome_size_ungapped": "1284130", "gc_percent": "24.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002813555.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "1166", "protein_coding_gene_count": "1124", "non_coding_gene_count": "35", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-12-07", "dateModified": "2017-12-07", "datePublished": "2017-12-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Spiroplasma floricola 23-6" ], "sample_taxid": [ "1336749" ], "sample_host_organism": [ "Liriodendron tulipifera" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Maryland" ], "sample_host_location_id": [], "data_size": "0.335 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)": "1284130", "Number of Sequences": "1", "Longest Sequences (bp)": "1284130", "N50 (bp)": "1284130", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "24.3", "Number of CDSs": "2112", "Average Protein Length": "128.3", "Coding Ratio (%)": "63.3", "Number of rRNAs": "3", "Number of tRNAs": "29", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Spiroplasma floricola", "strain": "strain=23-6", "accession": "GCA_002813555.1", "taxid": 216937, "species_taxid": 216937, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 428, "total_fragments": 428, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Spiroplasma diminutum", "strain": "strain=CUAS-1", "accession": "GCA_000439455.1", "taxid": 216936, "species_taxid": 216936, "relation_to_type": "type", "validated": true, "ani": 82.9444, "matched_fragments": 235, "total_fragments": 428, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma monobiae", "strain": "strain=MQ-1", "accession": "GCA_002865545.1", "taxid": 2136, "species_taxid": 2136, "relation_to_type": "type", "validated": true, "ani": 82.5851, "matched_fragments": 218, "total_fragments": 428, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma cantharicola", "strain": "strain=CC-1", "accession": "GCA_001281045.1", "taxid": 362837, "species_taxid": 362837, "relation_to_type": "type", "validated": true, "ani": 81.7109, "matched_fragments": 239, "total_fragments": 428, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma taiwanense", "strain": "strain=CT-1", "accession": "GCA_000439435.1", "taxid": 2145, "species_taxid": 2145, "relation_to_type": "type", "validated": true, "ani": 79.4942, "matched_fragments": 198, "total_fragments": 428, "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": 78.7764, "matched_fragments": 146, "total_fragments": 428, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma helicoides", "strain": "strain=TABS-2", "accession": "GCA_001715535.1", "taxid": 216938, "species_taxid": 216938, "relation_to_type": "type", "validated": true, "ani": 78.737, "matched_fragments": 117, "total_fragments": 428, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma gladiatoris", "strain": "strain=TG-1", "accession": "GCA_004379335.1", "taxid": 2143, "species_taxid": 2143, "relation_to_type": "type", "validated": true, "ani": 78.1932, "matched_fragments": 145, "total_fragments": 428, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002813555.1", "gtdb_species": "s__Spiroplasma_A floricola", "ani": 100.0, "matched_fragments": 428, "total_fragments": 428, "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": "conclusive" }, { "accession": "GCF_010365805.1", "gtdb_species": "s__Spiroplasma_A sp010365805", "ani": 83.1779, "matched_fragments": 230, "total_fragments": 428, "gtdb_taxonomy": 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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": "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_004379335.1", "gtdb_species": "s__Spiroplasma_A gladiatoris", "ani": 78.2184, "matched_fragments": 144, "total_fragments": 428, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.824, "cell_length": null, "doubling_h": null, "growth_tmp": 31.0, "optimum_tmp": 30.107, "optimum_ph": 5.033, "genome_size": 1284130.0, "gc_content": 24.3, "coding_genes": 1110.0, "rRNA16S_genes": 1.116, "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", "floricola", "23-6" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }