{ "type": "genome", "identifier": "GCF_005887555.1", "organism": "Lentibacillus cibarius", "title": "Lentibacillus cibarius", "description": "na", "data type": "Genome sequencing and assembly", "organization": "World Institute of Kimchi", "publication": [ {} ], "properties": { "assembly_accession": "GCF_005887555.1", "bioproject": "PRJNA224116", "biosample": "SAMN11792008", "wgs_master": "VCIA00000000.1", "refseq_category": "na", "taxid": "2583219", "species_taxid": "2583219", "organism_name": "Lentibacillus cibarius", "infraspecific_name": "strain=NKC220-2", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/05/29", "asm_name": "ASM588755v1", "asm_submitter": "World Institute of Kimchi", "gbrs_paired_asm": "GCA_005887555.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/005/887/555/GCF_005887555.1_ASM588755v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3660127", "genome_size_ungapped": "3660127", "gc_percent": "42.000000", "replicon_count": "0", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-01-17", "total_gene_count": "3680", "protein_coding_gene_count": "3475", "non_coding_gene_count": "98", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-05-29", "dateModified": "2019-05-29", "datePublished": "2019-05-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Lentibacillus cibarius" ], "sample_taxid": [ "2583219" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.031 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)": "3660127", "Number of Sequences": "3", "Longest Sequences (bp)": "3596949", "N50 (bp)": "3596949", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "42.0", "Number of CDSs": "3693", "Average Protein Length": "270.3", "Coding Ratio (%)": "81.8", "Number of rRNAs": "20", "Number of tRNAs": "74", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lentibacillus cibarius", "strain": "strain=NKC220-2", "accession": "GCA_005887555.1", "taxid": 2583219, "species_taxid": 2583219, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1214, "total_fragments": 1218, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lentibacillus jeotgali", "strain": "strain=Grbi", "accession": "GCA_000224785.2", "taxid": 558169, "species_taxid": 558169, "relation_to_type": "type", "validated": true, "ani": 78.7466, "matched_fragments": 227, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentibacillus amyloliquefaciens", "strain": "strain=LAM0015", "accession": "GCA_001307805.2", "taxid": 1472767, "species_taxid": 1472767, "relation_to_type": "type", "validated": true, "ani": 78.6604, "matched_fragments": 221, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Virgibacillus ihumii", "strain": "strain=Marseille-Q1233", "accession": "GCA_902726655.1", "taxid": 2686091, "species_taxid": 2686091, "relation_to_type": "type", "validated": true, "ani": 78.5294, "matched_fragments": 143, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Virgibacillus doumboii", "strain": "strain=Marseille-Q1616", "accession": "GCA_902806455.1", "taxid": 2697503, "species_taxid": 2697503, "relation_to_type": "type", "validated": true, "ani": 77.5977, "matched_fragments": 184, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Virgibacillus massiliensis", "strain": "strain=Vm-5", "accession": "GCA_000723585.1", "taxid": 1462526, "species_taxid": 1462526, "relation_to_type": "suspected-type", "validated": true, "ani": 77.5242, "matched_fragments": 70, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Virgibacillus massiliensis", "strain": "strain=Vm-5", "accession": "GCA_014905475.1", "taxid": 1462526, "species_taxid": 1462526, "relation_to_type": "suspected-type", "validated": true, "ani": 77.4886, "matched_fragments": 73, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentibacillus halodurans", "strain": "strain=CGMCC 1.3702", "accession": "GCA_900112045.1", "taxid": 237679, "species_taxid": 237679, "relation_to_type": "type", "validated": true, "ani": 77.3526, "matched_fragments": 254, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentibacillus persicus", "strain": "strain=DSM 22530", "accession": "GCA_900112705.1", "taxid": 640948, "species_taxid": 640948, "relation_to_type": "type", "validated": true, "ani": 77.3329, "matched_fragments": 169, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentibacillus kapialis", "strain": "strain=JCM 12580", "accession": "GCA_014646635.1", "taxid": 340214, "species_taxid": 340214, "relation_to_type": "type", "validated": true, "ani": 77.3146, "matched_fragments": 182, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Virgibacillus alimentarius", "strain": "strain=J18", "accession": "GCA_000709085.1", "taxid": 698769, "species_taxid": 698769, "relation_to_type": "type", "validated": true, "ani": 77.1498, "matched_fragments": 79, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lentibacillus sediminis", "strain": "strain=0W14", "accession": "GCA_002763455.1", "taxid": 1940529, "species_taxid": 1940529, "relation_to_type": "type", "validated": true, "ani": 76.7763, "matched_fragments": 84, "total_fragments": 1218, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_005887555.1", "gtdb_species": "s__Lentibacillus cibarius", "ani": 100.0, "matched_fragments": 1214, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Lentibacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.44", 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_000224785.1", "gtdb_species": "s__Lentibacillus jeotgali", "ani": 78.8108, "matched_fragments": 228, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Lentibacillus", "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_001307805.1", "gtdb_species": "s__Lentibacillus amyloliquefaciens", "ani": 78.6191, "matched_fragments": 222, "total_fragments": 1218, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Bacillales_D;f__Amphibacillaceae;g__Lentibacillus", "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": 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Lentibacillus", "cibarius" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }