{ "type": "genome", "identifier": "GCF_900474685.1", "organism": "Staphylococcus simulans", "title": "Staphylococcus simulans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900474685.1", "bioproject": "PRJNA224116", "biosample": "SAMEA3504572", "wgs_master": "na", "refseq_category": "na", "taxid": "1286", "species_taxid": "1286", "organism_name": "Staphylococcus simulans", "infraspecific_name": "strain=NCTC11046", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/06/18", "asm_name": "40961_B01", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900474685.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/474/685/GCF_900474685.1_40961_B01", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2762956", "genome_size_ungapped": "2762956", "gc_percent": "36.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-02-08", "total_gene_count": "2673", "protein_coding_gene_count": "2554", "non_coding_gene_count": "83", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-06-18", "dateModified": "2018-06-18", "datePublished": "2018-06-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Staphylococcus simulans" ], "sample_taxid": [ "1286" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.772 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)": "2762956", "Number of Sequences": "1", "Longest Sequences (bp)": "2762956", "N50 (bp)": "2762956", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "36.0", "Number of CDSs": "2652", "Average Protein Length": "301.8", "Coding Ratio (%)": "86.9", "Number of rRNAs": "18", "Number of tRNAs": "61", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Staphylococcus simulans", "strain": "strain=NCTC11046", "accession": "GCA_900474685.1", "taxid": 1286, "species_taxid": 1286, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 920, "total_fragments": 920, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Staphylococcus simulans", "strain": "strain=NCTC 11046", "accession": "GCA_002902285.1", "taxid": 1286, "species_taxid": 1286, "relation_to_type": "type", "validated": true, "ani": 99.9292, "matched_fragments": 868, "total_fragments": 920, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Staphylococcus condimenti", "strain": "strain=DSM 11674", "accession": "GCA_001618885.1", "taxid": 70255, "species_taxid": 70255, "relation_to_type": "type", "validated": true, "ani": 81.6746, "matched_fragments": 499, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus condimenti", "strain": "strain=NCTC13827", "accession": "GCA_900637235.1", "taxid": 70255, "species_taxid": 70255, "relation_to_type": "type", "validated": true, "ani": 81.4474, "matched_fragments": 510, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus carnosus", "strain": "strain=NCTC13825", "accession": "GCA_900458435.1", "taxid": 1281, "species_taxid": 1281, "relation_to_type": "type", "validated": true, "ani": 81.4062, "matched_fragments": 523, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus carnosus", "strain": "strain=FDAARGOS_883", "accession": "GCA_016028275.1", "taxid": 1281, "species_taxid": 1281, "relation_to_type": "type", "validated": true, "ani": 81.3718, "matched_fragments": 533, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus condimenti", "strain": "strain=DSM 11674", "accession": "GCA_001014685.1", "taxid": 70255, "species_taxid": 70255, "relation_to_type": "type", "validated": true, "ani": 81.2918, "matched_fragments": 489, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus piscifermentans", "strain": "strain=NCTC13836", "accession": "GCA_900186985.1", "taxid": 70258, "species_taxid": 70258, "relation_to_type": "type", "validated": true, "ani": 80.934, "matched_fragments": 507, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus piscifermentans", "strain": "strain=DSM 7373", "accession": "GCA_003970555.1", "taxid": 70258, "species_taxid": 70258, "relation_to_type": "type", "validated": true, "ani": 80.7077, "matched_fragments": 483, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Macrococcus armenti", "strain": "strain=JEK37", "accession": "GCA_020097135.1", "taxid": 2875764, "species_taxid": 2875764, "relation_to_type": "type", "validated": true, "ani": 79.274, "matched_fragments": 91, "total_fragments": 920, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Staphylococcus shinii", "strain": "strain=K22-5M", "accession": "GCA_017583065.1", "taxid": 2912228, "species_taxid": 2912228, 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"gtdb_species": "s__Staphylococcus borealis", "ani": 78.9926, "matched_fragments": 225, "total_fragments": 920, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Staphylococcales;f__Staphylococcaceae;g__Staphylococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.37", "min_intra_species_ani": "97.44", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 22, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.097, "cell_length": -0.097, "doubling_h": -0.365, "growth_tmp": 35.5, "optimum_tmp": 34.0, "optimum_ph": 6.75, "genome_size": 2730500.5, "gc_content": 35.866, "coding_genes": 2530.667, "rRNA16S_genes": 6.0, "tRNA_genes": 59.125, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.666, "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": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Staphylococcus", "simulans" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }