{ "type": "genome", "identifier": "GCF_022819085.1", "organism": "Planococcus ruber", "title": "Planococcus ruber", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Institute of Microbiology of the Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_022819085.1", "bioproject": "PRJNA224116", "biosample": "SAMN27032404", "wgs_master": "JALHAG000000000.1", "refseq_category": "reference genome", "taxid": "2027871", "species_taxid": "2027871", "organism_name": "Planococcus ruber", "infraspecific_name": "strain=CGMCC 1.19134", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/05", "asm_name": "ASM2281908v1", "asm_submitter": "The Institute of Microbiology of the Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_022819085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/022/819/085/GCF_022819085.1_ASM2281908v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3371367", "genome_size_ungapped": "3371121", "gc_percent": "46.000000", "replicon_count": "0", "scaffold_count": "13", "contig_count": "13", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_022819085.1-RS_2024_04_19", "annotation_date": "2024-04-19", "total_gene_count": "3414", "protein_coding_gene_count": "3321", "non_coding_gene_count": "75", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-04-05", "dateModified": "2022-04-05", "datePublished": "2022-04-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Planococcus ruber" ], "sample_taxid": [ "2027871" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Anhui Province" ], "sample_host_location_id": [], "data_size": "0.955 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)": "3371367", "Number of Sequences": "13", "Longest Sequences (bp)": "1527941", "N50 (bp)": "620836", "Gap Ratio (%)": "0.007297", "GCcontent (%)": "45.8", "Number of CDSs": "3362", "Average Protein Length": "295.9", "Coding Ratio (%)": "88.5", "Number of rRNAs": "3", "Number of tRNAs": "59", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Planococcus ruber", "strain": "strain=CGMCC 1.19134", "accession": "GCA_022819085.1", "taxid": 2027871, "species_taxid": 2027871, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1118, "total_fragments": 1118, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Planococcus massiliensis", "strain": "strain=ES2", "accession": "GCA_000821325.2", "taxid": 1499687, "species_taxid": 1499687, "relation_to_type": "type", "validated": true, "ani": 97.8636, "matched_fragments": 1042, "total_fragments": 1118, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Planococcus glaciei", "strain": "strain=CGMCC 1.6846", "accession": "GCA_900099655.1", "taxid": 459472, "species_taxid": 459472, "relation_to_type": "type", "validated": true, "ani": 80.1588, "matched_fragments": 529, "total_fragments": 1118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planococcus koreensis", "strain": "strain=DSM 15895", "accession": "GCA_014202615.1", "taxid": 112331, "species_taxid": 112331, "relation_to_type": "type", "validated": true, "ani": 79.5875, "matched_fragments": 419, "total_fragments": 1118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planococcus koreensis", "strain": "strain=10704", "accession": "GCA_004761975.1", "taxid": 112331, "species_taxid": 112331, "relation_to_type": "type", "validated": true, "ani": 79.5368, "matched_fragments": 422, "total_fragments": 1118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planococcus wigleyi", "strain": "strain=Sa1BUA13", "accession": "GCA_014836985.1", "taxid": 2762216, "species_taxid": 2762216, "relation_to_type": "type", "validated": true, "ani": 79.1571, "matched_fragments": 396, "total_fragments": 1118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planococcus antarcticus", "strain": "strain=DSM 14505", "accession": "GCA_001687565.2", "taxid": 161360, "species_taxid": 161360, "relation_to_type": "type", "validated": true, "ani": 78.8803, "matched_fragments": 314, "total_fragments": 1118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planococcus antarcticus", "strain": "strain=DSM 14505", "accession": "GCA_000264415.1", "taxid": 161360, "species_taxid": 161360, "relation_to_type": "type", "validated": true, "ani": 78.7738, "matched_fragments": 307, "total_fragments": 1118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planococcus soli", "strain": "strain=c23", "accession": "GCA_016881065.1", "taxid": 2666072, "species_taxid": 2666072, "relation_to_type": "type", "validated": true, "ani": 78.7052, "matched_fragments": 373, "total_fragments": 1118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planococcus maitriensis", "strain": "strain=S1", "accession": "GCA_003289925.1", "taxid": 221799, "species_taxid": 221799, "relation_to_type": "type", "validated": true, "ani": 78.4418, "matched_fragments": 307, "total_fragments": 1118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planococcus rifietoensis", "strain": "strain=M8", "accession": "GCA_001465795.2", "taxid": 200991, "species_taxid": 200991, "relation_to_type": "type", "validated": true, "ani": 78.3629, "matched_fragments": 327, "total_fragments": 1118, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Planococcus maritimus", "strain": "strain=DSM 17275", "accession": "GCA_001687625.2", "taxid": 192421, "species_taxid": 192421, "relation_to_type": "type", "validated": true, "ani": 78.3443, "matched_fragments": 274, "total_fragments": 1118, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000821325.1", "gtdb_species": "s__Planococcus massiliensis", "ani": 97.8636, "matched_fragments": 1042, "total_fragments": 1118, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Planococcus", "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": "conclusive" }, { "accession": "GCF_900099655.1", "gtdb_species": "s__Planococcus glaciei", "ani": 80.1481, "matched_fragments": 530, "total_fragments": 1118, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Planococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.05", "min_intra_species_ani": "96.92", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.89", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_016908095.1", "gtdb_species": "s__Planococcus chinensis", "ani": 79.6968, "matched_fragments": 454, "total_fragments": 1118, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_A;f__Planococcaceae;g__Planococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", 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