{ "type": "genome", "identifier": "GCF_000786195.1", "organism": "Kocuria rosea subsp. polaris", "title": "Kocuria rosea subsp. polaris", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Centre for Cellular and Molecular Biology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000786195.1", "bioproject": "PRJNA224116", "biosample": "SAMN02863078", "wgs_master": "JSUH00000000.1", "refseq_category": "na", "taxid": "136273", "species_taxid": "1275", "organism_name": "Kocuria rosea subsp. polaris", "infraspecific_name": "strain=CMS 76or", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/11/23", "asm_name": "ASM78619v1", "asm_submitter": "Centre for Cellular and Molecular Biology", "gbrs_paired_asm": "GCA_000786195.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/786/195/GCF_000786195.1_ASM78619v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3779802", "genome_size_ungapped": "3779802", "gc_percent": "73.000000", "replicon_count": "0", "scaffold_count": "67", "contig_count": "67", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000786195.1-RS_2024_12_14", "annotation_date": "2024-12-14", "total_gene_count": "3513", "protein_coding_gene_count": "3398", "non_coding_gene_count": "54", "pubmed_id": "12656171;26238095" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-11-23", "dateModified": "2014-11-23", "datePublished": "2014-11-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Kocuria rosea subsp. polaris" ], "sample_taxid": [ "136273" ], "sample_host_organism": [ "missing" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Antarctica: McMurdo Dry Valley" ], "sample_host_location_id": [], "data_size": "1.003 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)": "3779802", "Number of Sequences": "67", "Longest Sequences (bp)": "449461", "N50 (bp)": "238548", "Gap Ratio (%)": "0.000053", "GCcontent (%)": "72.8", "Number of CDSs": "3444", "Average Protein Length": "324.6", "Coding Ratio (%)": "88.7", "Number of rRNAs": "3", "Number of tRNAs": "52", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Kocuria rosea", "strain": "strain=ATCC 186", "accession": "GCA_006094695.1", "taxid": 1275, "species_taxid": 1275, "relation_to_type": "suspected-type", "validated": true, "ani": 98.6469, "matched_fragments": 1114, "total_fragments": 1224, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Kocuria rosea", "strain": "strain=ATCC 186", "accession": "GCA_003124035.1", "taxid": 1275, "species_taxid": 1275, "relation_to_type": "suspected-type", "validated": true, "ani": 98.6296, "matched_fragments": 1106, "total_fragments": 1224, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Kocuria rosea", "strain": "strain=DSM 20447", "accession": "GCA_006717035.1", "taxid": 1275, "species_taxid": 1275, "relation_to_type": "suspected-type", "validated": true, "ani": 98.4845, "matched_fragments": 1086, "total_fragments": 1224, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Kocuria turfanensis", "strain": "strain=HO-9042", "accession": "GCA_001580365.1", "taxid": 388357, "species_taxid": 388357, "relation_to_type": "type", "validated": true, "ani": 88.3991, "matched_fragments": 974, "total_fragments": 1224, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kocuria sediminis", "strain": "strain=JCM 17929", "accession": "GCA_009735315.1", "taxid": 1038857, "species_taxid": 1038857, "relation_to_type": "type", "validated": true, "ani": 88.172, "matched_fragments": 972, "total_fragments": 1224, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kocuria dechangensis", "strain": "strain=CGMCC 1.12187", "accession": "GCA_014636775.1", "taxid": 1176249, "species_taxid": 1176249, "relation_to_type": "type", "validated": true, "ani": 86.2576, "matched_fragments": 893, "total_fragments": 1224, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kocuria flava", "strain": "strain=HO-9041", "accession": "GCA_001482365.1", "taxid": 446860, "species_taxid": 446860, "relation_to_type": "type", "validated": true, "ani": 85.2167, "matched_fragments": 882, "total_fragments": 1224, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micrococcus flavus", "strain": "strain=DSM 19079", "accession": "GCA_022348285.1", "taxid": 384602, "species_taxid": 384602, "relation_to_type": "type", "validated": true, "ani": 78.6179, "matched_fragments": 355, "total_fragments": 1224, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter sedimenti", "strain": "strain=MIC A30", "accession": "GCA_011750795.2", "taxid": 2694931, "species_taxid": 2694931, "relation_to_type": "type", "validated": true, "ani": 78.0615, "matched_fragments": 321, "total_fragments": 1224, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sinomonas notoginsengisoli", "strain": "strain=KCTC 29237", "accession": "GCA_021554725.1", "taxid": 1457311, "species_taxid": 1457311, "relation_to_type": "type", "validated": true, "ani": 77.7819, "matched_fragments": 307, "total_fragments": 1224, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arthrobacter sunyaminii", "strain": "strain=zg-ZUI122", "accession": "GCA_018866305.1", "taxid": 2816859, "species_taxid": 2816859, "relation_to_type": "type", "validated": true, "ani": 77.5178, "matched_fragments": 228, "total_fragments": 1224, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulomonas palmilytica", "strain": "strain=EW123", "accession": "GCA_021590045.1", "taxid": 2608402, "species_taxid": 2608402, "relation_to_type": "type", "validated": true, "ani": 77.1944, "matched_fragments": 281, "total_fragments": 1224, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_006094695.1", "gtdb_species": "s__Kocuria rosea", "ani": 98.6469, "matched_fragments": 1114, "total_fragments": 1224, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.85", "min_intra_species_ani": "97.54", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.85", "num_clustered_genomes": 16, "status": "conclusive" }, { "accession": "GCF_001483755.1", "gtdb_species": "s__Kocuria polaris_A", "ani": 92.3457, "matched_fragments": 1010, "total_fragments": 1224, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria", "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_001580365.1", "gtdb_species": "s__Kocuria turfanensis", "ani": 88.385, "matched_fragments": 975, "total_fragments": 1224, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.38", "min_intra_species_ani": "95.01", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.80", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_014636775.1", "gtdb_species": "s__Kocuria dechangensis", "ani": 86.2924, "matched_fragments": 891, "total_fragments": 1224, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria", "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_001482365.1", "gtdb_species": "s__Kocuria flava", "ani": 85.2214, "matched_fragments": 882, "total_fragments": 1224, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Micrococcaceae;g__Kocuria", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.78", "min_intra_species_ani": "97.61", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.0, "cell_length": -0.009, "doubling_h": null, "growth_tmp": 29.2, "optimum_tmp": 29.863, "optimum_ph": 7.416, "genome_size": 3128484.398, "gc_content": 71.521, "coding_genes": 2561.833, "rRNA16S_genes": 3.0, "tRNA_genes": 47.333, "gram_stain": 1.0, "sporulation": 0.125, "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": [ "Kocuria", "rosea", "subsp.", "polaris" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }