{ "type": "genome", "identifier": "GCF_001029245.1", "organism": "Spiroplasma mirum", "title": "Spiroplasma mirum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Academia Sinica", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001029245.1", "bioproject": "PRJNA224116", "biosample": "SAMN03488049", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2144", "species_taxid": "2144", "organism_name": "Spiroplasma mirum", "infraspecific_name": "strain=GNAT3597", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/06/17", "asm_name": "ASM102924v1", "asm_submitter": "Academia Sinica", "gbrs_paired_asm": "GCA_001029245.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/029/245/GCF_001029245.1_ASM102924v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1160484", "genome_size_ungapped": "1160484", "gc_percent": "29.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001029245.1-RS_2024_12_12", "annotation_date": "2024-12-12", "total_gene_count": "1380", "protein_coding_gene_count": "1319", "non_coding_gene_count": "39", "pubmed_id": "26254485" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-06-17", "dateModified": "2015-06-17", "datePublished": "2015-06-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Spiroplasma mirum" ], "sample_taxid": [ "2144" ], "sample_host_organism": [ "Atrichopogon sp." ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Salisbury, MD" ], "sample_host_location_id": [], "data_size": "0.316 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)": "1160484", "Number of Sequences": "1", "Longest Sequences (bp)": "1160484", "N50 (bp)": "1160484", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "29.3", "Number of CDSs": "1805", "Average Protein Length": "130.4", "Coding Ratio (%)": "60.9", "Number of rRNAs": "3", "Number of tRNAs": "33", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Spiroplasma mirum", "strain": "strain=ATCC 29335", "accession": "GCA_000517365.1", "taxid": 2144, "species_taxid": 2144, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9958, "matched_fragments": 376, "total_fragments": 386, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Spiroplasma mirum", "strain": "strain=SMCA", "accession": "GCA_000565195.1", "taxid": 2144, "species_taxid": 2144, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9831, "matched_fragments": 377, "total_fragments": 386, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Spiroplasma eriocheiris", "strain": "strain=DSM 21848", "accession": "GCA_001029265.1", "taxid": 315358, "species_taxid": 315358, "relation_to_type": "type", "validated": true, "ani": 92.6543, "matched_fragments": 350, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma eriocheiris", "strain": "strain=CCTCC M 207170", "accession": "GCA_002028345.1", "taxid": 315358, "species_taxid": 315358, "relation_to_type": "type", "validated": true, "ani": 92.6023, "matched_fragments": 355, "total_fragments": 386, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma 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"N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_005222125.1", "gtdb_species": "s__Spiroplasma melliferum", "ani": 78.4412, "matched_fragments": 141, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Mycoplasmataceae;g__Spiroplasma", "ani_circumscription_radius": 96.5649, "mean_intra_species_ani": "99.84", "min_intra_species_ani": "99.69", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.98", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001886495.1", "gtdb_species": "s__Spiroplasma sp001886495", "ani": 78.2105, "matched_fragments": 142, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Mycoplasmataceae;g__Spiroplasma", "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_000400935.1", "gtdb_species": "s__Spiroplasma chrysopicola", "ani": 78.0339, "matched_fragments": 128, "total_fragments": 386, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Mycoplasmatales;f__Mycoplasmataceae;g__Spiroplasma", "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": -1.0, "cell_length": null, "doubling_h": null, "growth_tmp": 33.0, "optimum_tmp": 33.5, "optimum_ph": 5.033, "genome_size": 1132600.857, "gc_content": 29.4, "coding_genes": 1149.8, "rRNA16S_genes": 1.0, "tRNA_genes": 33.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.107, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.892, "mesophilic_range_tmp": 1.0, 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