{ "type": "genome", "identifier": "GCF_004309355.1", "organism": "Enterococcus florum", "title": "Enterococcus florum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Tokyo University of Agriculture", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004309355.1", "bioproject": "PRJNA224116", "biosample": "SAMD00162630", "wgs_master": "BJCC00000000.1", "refseq_category": "reference genome", "taxid": "2480627", "species_taxid": "2480627", "organism_name": "Enterococcus florum", "infraspecific_name": "strain=Gos25-1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/02/15", "asm_name": "ASM430935v1", "asm_submitter": "Tokyo University of Agriculture", "gbrs_paired_asm": "GCA_004309355.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/309/355/GCF_004309355.1_ASM430935v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3994908", "genome_size_ungapped": "3994908", "gc_percent": "42.500000", "replicon_count": "0", "scaffold_count": "73", "contig_count": "73", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004309355.1-RS_2024_09_09", "annotation_date": "2024-09-09", "total_gene_count": "3893", "protein_coding_gene_count": "3783", "non_coding_gene_count": "67", "pubmed_id": "31204971" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-02-15", "dateModified": "2019-02-15", "datePublished": "2019-02-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterococcus florum" ], "sample_taxid": [ "2480627" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.138 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)": "3994908", "Number of Sequences": "73", "Longest Sequences (bp)": "250631", "N50 (bp)": "154984", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "42.4", "Number of CDSs": "3833", "Average Protein Length": "303.7", "Coding Ratio (%)": "87.4", "Number of rRNAs": "4", "Number of tRNAs": "55", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterococcus florum", "strain": "strain=Gos25-1", "accession": "GCA_004309355.1", "taxid": 2480627, "species_taxid": 2480627, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1304, "total_fragments": 1305, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus pallens", "strain": "strain=ATCC BAA-351", "accession": "GCA_000393975.1", "taxid": 160454, "species_taxid": 160454, "relation_to_type": "type", "validated": true, "ani": 79.4502, "matched_fragments": 382, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus pallens", "strain": "strain=ATCC BAA-351", "accession": "GCA_000407485.1", "taxid": 160454, "species_taxid": 160454, "relation_to_type": "type", "validated": true, "ani": 79.3895, "matched_fragments": 384, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus pallens", "strain": "strain=DSM 15690", "accession": "GCA_001886075.1", "taxid": 160454, "species_taxid": 160454, "relation_to_type": "type", "validated": true, "ani": 79.2759, "matched_fragments": 378, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus lactis", "strain": "strain=CCM 8412", "accession": "GCA_015751045.1", "taxid": 357441, "species_taxid": 357441, "relation_to_type": "type", "validated": true, "ani": 78.5452, "matched_fragments": 86, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus dongliensis", "strain": "strain=63-4", "accession": "GCA_005405225.1", "taxid": 2559925, "species_taxid": 2559925, "relation_to_type": "type", "validated": true, "ani": 78.5222, "matched_fragments": 145, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus lactis", "strain": "strain=LMG 25958", "accession": "GCA_015904215.1", "taxid": 357441, "species_taxid": 357441, "relation_to_type": "type", "validated": true, "ani": 78.5068, "matched_fragments": 84, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus pingfangensis", "strain": "strain=241-2-2", "accession": "GCA_005405205.1", "taxid": 2559924, "species_taxid": 2559924, "relation_to_type": "type", "validated": true, "ani": 78.4007, "matched_fragments": 170, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus gilvus", "strain": "strain=ATCC BAA-350", "accession": "GCA_000394615.1", "taxid": 160453, "species_taxid": 160453, "relation_to_type": "type", "validated": true, "ani": 78.2769, "matched_fragments": 225, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus raffinosus", "strain": "strain=NBRC 100492", "accession": "GCA_001544115.1", "taxid": 71452, "species_taxid": 71452, "relation_to_type": "type", "validated": true, "ani": 78.2484, "matched_fragments": 222, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus raffinosus", "strain": "strain=DSM 5633", "accession": "GCA_001886185.1", "taxid": 71452, "species_taxid": 71452, "relation_to_type": "type", "validated": true, "ani": 78.2089, "matched_fragments": 226, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus gilvus", "strain": "strain=ATCC BAA-350", "accession": "GCA_000407545.1", "taxid": 160453, "species_taxid": 160453, "relation_to_type": "type", "validated": true, "ani": 78.1833, "matched_fragments": 227, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus gilvus", "strain": "strain=DSM 15689", "accession": "GCA_001885915.1", "taxid": 160453, "species_taxid": 160453, "relation_to_type": "type", "validated": true, "ani": 78.1535, "matched_fragments": 224, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus avium", "strain": "strain=DSM 20679", "accession": "GCA_001885775.1", "taxid": 33945, "species_taxid": 33945, "relation_to_type": "type", "validated": true, "ani": 78.0998, "matched_fragments": 222, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus hulanensis", "strain": "strain=190-7", "accession": "GCA_005405485.1", "taxid": 2559929, "species_taxid": 2559929, "relation_to_type": "type", "validated": true, "ani": 77.9163, "matched_fragments": 257, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus devriesei", "strain": "strain=DSM 22802", "accession": "GCA_001885905.1", "taxid": 319970, "species_taxid": 319970, "relation_to_type": "type", "validated": true, "ani": 77.8189, "matched_fragments": 213, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus larvae", "strain": "strain=BWM-S5", "accession": "GCA_017830045.1", "taxid": 2794352, "species_taxid": 2794352, "relation_to_type": "type", "validated": true, "ani": 77.4072, "matched_fragments": 73, "total_fragments": 1305, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004309355.1", "gtdb_species": "s__Enterococcus_A florum", "ani": 100.0, "matched_fragments": 1304, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "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": "conclusive" }, { "accession": "GCF_000407485.1", "gtdb_species": "s__Enterococcus_A pallens", "ani": 79.3876, "matched_fragments": 383, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, 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"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_015751045.1", "gtdb_species": "s__Enterococcus_B lactis", "ani": 78.6401, "matched_fragments": 84, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.26", "min_intra_species_ani": "97.66", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.81", "num_clustered_genomes": 335, "status": "-" }, { "accession": "GCF_005405225.1", "gtdb_species": "s__Enterococcus_A dongliensis", "ani": 78.5503, "matched_fragments": 144, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "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_005405205.1", "gtdb_species": "s__Enterococcus_A pingfangensis", "ani": 78.4007, "matched_fragments": 170, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "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_000406965.1", "gtdb_species": "s__Enterococcus_A avium", "ani": 78.3396, "matched_fragments": 224, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.01", "min_intra_species_ani": "97.91", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.78", "num_clustered_genomes": 43, "status": "-" }, { "accession": "GCF_005405365.1", "gtdb_species": "s__Enterococcus_A xiangfangensis", "ani": 78.2744, "matched_fragments": 198, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.65", "min_intra_species_ani": "99.31", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001886185.1", "gtdb_species": "s__Enterococcus_A raffinosus", "ani": 78.2089, "matched_fragments": 226, "total_fragments": 1305, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.27", "min_intra_species_ani": "97.96", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.87", "num_clustered_genomes": 12, 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"optimum_ph": 8.805, "genome_size": 3255020.058, "gc_content": 38.565, "coding_genes": 2937.768, "rRNA16S_genes": 5.5, "tRNA_genes": 60.871, "gram_stain": 1.0, "sporulation": 0.062, "motility": 0.0, "range_salinity": 1.0, "facultative_respiration": 0.229, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.77, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.031, "coccus_cell_shape": 0.812, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.156, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Enterococcus", "florum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }