{ "type": "genome", "identifier": "GCF_001466745.1", "organism": "Aerococcus christensenii DSM 15819 = CCUG 28831", "title": "Aerococcus christensenii DSM 15819 = CCUG 28831", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Zhejiang University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001466745.1", "bioproject": "PRJNA224116", "biosample": "SAMN03018620", "wgs_master": "AMZK00000000.1", "refseq_category": "na", "taxid": "525247", "species_taxid": "87541", "organism_name": "Aerococcus christensenii DSM 15819 = CCUG 28831", "infraspecific_name": "strain=DSM 15819", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/12/15", "asm_name": "DSM15819v1.0", "asm_submitter": "Zhejiang University", "gbrs_paired_asm": "GCA_001466745.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/466/745/GCF_001466745.1_DSM15819v1.0", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1589378", "genome_size_ungapped": "1589378", "gc_percent": "39.000000", "replicon_count": "0", "scaffold_count": "46", "contig_count": "46", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001466745.1-RS_2024_05_17", "annotation_date": "2024-05-17", "total_gene_count": "1531", "protein_coding_gene_count": "1451", "non_coding_gene_count": "41", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-12-15", "dateModified": "2015-12-15", "datePublished": "2015-12-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Aerococcus christensenii DSM 15819 = CCUG 28831" ], "sample_taxid": [ "525247" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Seattle" ], "sample_host_location_id": [], "data_size": "0.454 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)": "1589378", "Number of Sequences": "46", "Longest Sequences (bp)": "191658", "N50 (bp)": "79406", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "39.0", "Number of CDSs": "1498", "Average Protein Length": "304.2", "Coding Ratio (%)": "86.0", "Number of rRNAs": "2", "Number of tRNAs": "34", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Aerococcus christensenii", "strain": "strain=DSM 15819", "accession": "GCA_001466745.1", "taxid": 87541, "species_taxid": 87541, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 503, "total_fragments": 505, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Aerococcus christensenii", "strain": "strain=CCUG28831", "accession": "GCA_001543105.1", "taxid": 87541, "species_taxid": 87541, "relation_to_type": "type", "validated": true, "ani": 99.9904, "matched_fragments": 505, "total_fragments": 505, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Aerococcus urinae", "strain": "strain=ATCC 51268", "accession": "GCA_002087935.1", "taxid": 1376, "species_taxid": 1376, "relation_to_type": "suspected-type", "validated": true, "ani": 78.0487, "matched_fragments": 58, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aerococcus urinae", "strain": "strain=FDAARGOS_911", "accession": "GCA_016026975.1", "taxid": 1376, "species_taxid": 1376, "relation_to_type": "suspected-type", "validated": true, "ani": 77.9381, "matched_fragments": 56, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aerococcus urinae", "strain": "strain=CCUG36881", "accession": "GCA_001543175.1", "taxid": 1376, "species_taxid": 1376, "relation_to_type": "suspected-type", "validated": true, "ani": 77.9318, "matched_fragments": 57, "total_fragments": 505, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001543105.1", "gtdb_species": "s__Aerococcus christensenii", "ani": 99.9904, "matched_fragments": 505, "total_fragments": 505, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Aerococcaceae;g__Aerococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.28", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_000193205.1", "gtdb_species": "s__Aerococcus urinae_A", "ani": 78.4264, "matched_fragments": 59, "total_fragments": 505, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Aerococcaceae;g__Aerococcus", "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_002884575.1", "gtdb_species": "s__Aerococcus urinae_D", "ani": 78.2422, "matched_fragments": 59, "total_fragments": 505, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Aerococcaceae;g__Aerococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.27", "min_intra_species_ani": "96.37", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.88", "num_clustered_genomes": 29, "status": "-" }, { "accession": "GCF_001543175.1", "gtdb_species": "s__Aerococcus urinae", "ani": 77.9318, "matched_fragments": 57, "total_fragments": 505, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Aerococcaceae;g__Aerococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.95", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.96", "num_clustered_genomes": 26, "status": "-" }, { "accession": "GCF_003286825.1", "gtdb_species": "s__Aerococcus urinae_B", "ani": 77.7719, "matched_fragments": 62, "total_fragments": 505, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Aerococcaceae;g__Aerococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.01", "min_intra_species_ani": "98.40", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 11, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 34.0, "optimum_tmp": 37.0, "optimum_ph": 9.6, "genome_size": 1637472.0, "gc_content": 39.2, "coding_genes": 1434.0, "rRNA16S_genes": 4.0, "tRNA_genes": 60.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "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": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Aerococcus", "christensenii", "DSM", "15819", "=", "CCUG", "28831" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }