{ "type": "genome", "identifier": "GCF_004379335.1", "organism": "Spiroplasma gladiatoris", "title": "Spiroplasma gladiatoris", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Academia Sinica", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004379335.1", "bioproject": "PRJNA224116", "biosample": "SAMN11157588", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2143", "species_taxid": "2143", "organism_name": "Spiroplasma gladiatoris", "infraspecific_name": "strain=TG-1", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/26", "asm_name": "ASM437933v1", "asm_submitter": "Academia Sinica", "gbrs_paired_asm": "GCA_004379335.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/379/335/GCF_004379335.1_ASM437933v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1164642", "genome_size_ungapped": "1164642", "gc_percent": "25.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004379335.1-RS_2024_04_19", "annotation_date": "2024-04-19", "total_gene_count": "1056", "protein_coding_gene_count": "1017", "non_coding_gene_count": "36", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-03-26", "dateModified": "2019-03-26", "datePublished": "2019-03-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Spiroplasma gladiatoris" ], "sample_taxid": [ "2143" ], "sample_host_organism": [ "Tabanus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Bucktown, MD" ], "sample_host_location_id": [], "data_size": "0.308 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)": "1164642", "Number of Sequences": "1", "Longest Sequences (bp)": "1164642", "N50 (bp)": "1164642", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "25.0", "Number of CDSs": "1889", "Average Protein Length": "137.2", "Coding Ratio (%)": "66.8", "Number of rRNAs": "3", "Number of tRNAs": "30", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Spiroplasma gladiatoris", "strain": "strain=TG-1", "accession": "GCA_004379335.1", "taxid": 2143, "species_taxid": 2143, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 388, "total_fragments": 388, "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": 82.0684, "matched_fragments": 241, "total_fragments": 388, "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": 78.9086, "matched_fragments": 159, "total_fragments": 388, "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": 78.8843, "matched_fragments": 104, "total_fragments": 388, "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": 78.8128, "matched_fragments": 147, "total_fragments": 388, "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": 78.6218, "matched_fragments": 125, "total_fragments": 388, "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": 78.4268, "matched_fragments": 140, "total_fragments": 388, "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": 78.4266, "matched_fragments": 129, "total_fragments": 388, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma apis", "strain": "strain=B31", "accession": "GCA_000500935.1", "taxid": 2137, "species_taxid": 2137, "relation_to_type": "type", "validated": true, "ani": 78.2147, "matched_fragments": 81, "total_fragments": 388, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma litorale", "strain": "strain=TN-1", "accession": "GCA_001267155.1", "taxid": 216942, "species_taxid": 216942, "relation_to_type": "type", "validated": true, "ani": 77.8733, "matched_fragments": 116, "total_fragments": 388, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Spiroplasma alleghenense", "strain": "strain=PLHS-1", "accession": "GCA_003363775.1", "taxid": 216931, "species_taxid": 216931, "relation_to_type": "type", "validated": true, "ani": 77.2521, "matched_fragments": 65, "total_fragments": 388, "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": 76.7122, "matched_fragments": 65, "total_fragments": 388, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004379335.1", "gtdb_species": "s__Spiroplasma_A gladiatoris", "ani": 100.0, "matched_fragments": 388, "total_fragments": 388, "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_009730595.1", "gtdb_species": "s__Spiroplasma_A tabanidicola", "ani": 82.1014, "matched_fragments": 240, "total_fragments": 388, "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_000565175.1", "gtdb_species": "s__Spiroplasma_A culicicola", "ani": 78.9344, "matched_fragments": 158, "total_fragments": 388, "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_008086545.1", "gtdb_species": "s__Spiroplasma_A chinense", "ani": 78.9134, "matched_fragments": 146, "total_fragments": 388, "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_002865545.1", "gtdb_species": "s__Spiroplasma_A monobiae", "ani": 78.8843, "matched_fragments": 104, "total_fragments": 388, "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": 78.7726, 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0.0, "spiral_cell_shape": 0.857 }, "_genome_taxon": [ "Spiroplasma", "gladiatoris" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }