{ "type": "genome", "identifier": "GCF_001267155.1", "organism": "Spiroplasma litorale", "title": "Spiroplasma litorale", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Academia Sinica", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001267155.1", "bioproject": "PRJNA224116", "biosample": "SAMN03938703", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "216942", "species_taxid": "216942", "organism_name": "Spiroplasma litorale", "infraspecific_name": "strain=TN-1", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/08/13", "asm_name": "ASM126715v1", "asm_submitter": "Academia Sinica", "gbrs_paired_asm": "GCA_001267155.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/267/155/GCF_001267155.1_ASM126715v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1225519", "genome_size_ungapped": "1225519", "gc_percent": "25.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001267155.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "1156", "protein_coding_gene_count": "1115", "non_coding_gene_count": "35", "pubmed_id": "26430038" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-08-13", "dateModified": "2015-08-13", "datePublished": "2015-08-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Spiroplasma litorale" ], "sample_taxid": [ "216942" ], "sample_host_organism": [ "Tabanus nigrovittatus (horsefly)" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Ocracoke Island, NC" ], "sample_host_location_id": [], "data_size": "0.324 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)": "1225519", "Number of Sequences": "1", "Longest Sequences (bp)": "1225519", "N50 (bp)": "1225519", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "24.9", "Number of CDSs": "1985", "Average Protein Length": "139.2", "Coding Ratio (%)": "67.6", "Number of rRNAs": "3", "Number of tRNAs": "29", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Spiroplasma litorale", "strain": "strain=TN-1", "accession": "GCA_001267155.1", "taxid": 216942, "species_taxid": 216942, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 407, "total_fragments": 408, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Spiroplasma turonicum", "strain": "strain=Tab4c", "accession": "GCA_001513715.1", "taxid": 216946, "species_taxid": 216946, "relation_to_type": "type", "validated": true, "ani": 79.2861, "matched_fragments": 203, "total_fragments": 408, "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": 79.2341, "matched_fragments": 203, "total_fragments": 408, "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": 78.4347, "matched_fragments": 115, "total_fragments": 408, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma diminutum", "strain": "strain=CUAS-1", "accession": "GCA_000439455.1", "taxid": 216936, "species_taxid": 216936, "relation_to_type": "type", "validated": true, "ani": 78.4161, "matched_fragments": 103, "total_fragments": 408, "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": 78.2631, "matched_fragments": 107, "total_fragments": 408, "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": 78.1253, "matched_fragments": 90, "total_fragments": 408, "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": 77.7681, "matched_fragments": 111, "total_fragments": 408, "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": 77.5202, "matched_fragments": 108, "total_fragments": 408, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001267155.1", "gtdb_species": "s__Spiroplasma_A litorale", "ani": 100.0, "matched_fragments": 407, "total_fragments": 408, "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_002237575.1", "gtdb_species": "s__Spiroplasma_A corruscae", "ani": 79.3023, "matched_fragments": 178, "total_fragments": 408, "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": 79.2342, "matched_fragments": 203, "total_fragments": 408, "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", 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"GCF_002865545.1", "gtdb_species": "s__Spiroplasma_A monobiae", "ani": 78.164, "matched_fragments": 89, "total_fragments": 408, "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_009730595.1", "gtdb_species": "s__Spiroplasma_A tabanidicola", "ani": 78.1213, "matched_fragments": 119, "total_fragments": 408, "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_004379335.1", "gtdb_species": "s__Spiroplasma_A gladiatoris", "ani": 78.0816, "matched_fragments": 109, "total_fragments": 408, "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_010365805.1", "gtdb_species": "s__Spiroplasma_A sp010365805", "ani": 78.0639, "matched_fragments": 90, "total_fragments": 408, "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_001281045.1", "gtdb_species": "s__Spiroplasma_A cantharicola", "ani": 77.7574, "matched_fragments": 112, 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1225519.25, "gc_content": 24.9, "coding_genes": 1085.0, "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", "litorale" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }