{ "type": "genome", "identifier": "GCF_000158615.1", "organism": "Eikenella corrodens ATCC 23834", "title": "Eikenella corrodens ATCC 23834", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Washington University Genome Sequencing Center", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000158615.1", "bioproject": "PRJNA224116", "biosample": "SAMN00008822", "wgs_master": "ACEA00000000.1", "refseq_category": "na", "taxid": "546274", "species_taxid": "539", "organism_name": "Eikenella corrodens ATCC 23834", "infraspecific_name": "strain=ATCC 23834", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2009/02/05", "asm_name": "ASM15861v1", "asm_submitter": "Washington University Genome Sequencing Center", "gbrs_paired_asm": "GCA_000158615.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/158/615/GCF_000158615.1_ASM15861v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2171245", "genome_size_ungapped": "2135355", "gc_percent": "56.000000", "replicon_count": "0", "scaffold_count": "12", "contig_count": "65", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000158615.1-RS_2024_05_15", "annotation_date": "2024-05-15", "total_gene_count": "2170", "protein_coding_gene_count": "2063", "non_coding_gene_count": "53", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2009-02-05", "dateModified": "2009-02-05", "datePublished": "2009-02-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Eikenella corrodens ATCC 23834" ], "sample_taxid": [ "546274" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not determined" ], "sample_host_location_id": [], "data_size": "0.598 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 92.2, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2171245", "Number of Sequences": "12", "Longest Sequences (bp)": "758869", "N50 (bp)": "726866", "Gap Ratio (%)": "1.652969", "GCcontent (%)": "55.8", "Number of CDSs": "2071", "Average Protein Length": "287.4", "Coding Ratio (%)": "82.2", "Number of rRNAs": "3", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Eikenella corrodens", "strain": "strain=ATCC 23834", "accession": "GCA_000158615.1", "taxid": 539, "species_taxid": 539, "relation_to_type": "type", "validated": true, "ani": 99.9999, "matched_fragments": 714, "total_fragments": 718, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Eikenella corrodens", "strain": "strain=NCTC10596", "accession": "GCA_900187105.1", "taxid": 539, "species_taxid": 539, "relation_to_type": "type", "validated": true, "ani": 99.929, "matched_fragments": 711, "total_fragments": 718, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Eikenella corrodens", "strain": "strain=FDAARGOS_1474", "accession": "GCA_019930845.1", "taxid": 539, "species_taxid": 539, "relation_to_type": "type", "validated": true, "ani": 99.9229, "matched_fragments": 714, "total_fragments": 718, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Eikenella halliae", "strain": "strain=NML130454", "accession": "GCA_001648475.1", "taxid": 1795832, "species_taxid": 1795832, "relation_to_type": "type", "validated": true, "ani": 93.1612, "matched_fragments": 612, "total_fragments": 718, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eikenella exigua", "strain": "strain=PXX", "accession": "GCA_008805035.1", "taxid": 2528037, "species_taxid": 2528037, "relation_to_type": "type", "validated": true, "ani": 91.9936, "matched_fragments": 551, "total_fragments": 718, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eikenella longinqua", "strain": "strain=NML02-A-017", "accession": "GCA_001648355.1", "taxid": 1795827, "species_taxid": 1795827, "relation_to_type": "type", "validated": true, "ani": 86.2785, "matched_fragments": 567, "total_fragments": 718, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Morococcus cerebrosus", "strain": "strain=CIP 81.93", "accession": "GCA_022749515.1", "taxid": 1056807, "species_taxid": 1056807, "relation_to_type": "type", "validated": true, "ani": 80.2125, "matched_fragments": 274, "total_fragments": 718, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kingella potus", "strain": "strain=3/SID/1128", "accession": "GCA_022870985.1", "taxid": 265175, "species_taxid": 265175, "relation_to_type": "type", "validated": true, "ani": 79.4298, "matched_fragments": 288, "total_fragments": 718, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kingella potus", "strain": "strain=NCTC13336", "accession": "GCA_900451175.1", "taxid": 265175, "species_taxid": 265175, "relation_to_type": "type", "validated": true, "ani": 79.23, "matched_fragments": 301, "total_fragments": 718, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neisseria dumasiana", "strain": "strain=LMG 30012", "accession": "GCA_022870885.1", "taxid": 1931275, "species_taxid": 1931275, "relation_to_type": "type", "validated": true, "ani": 78.9661, "matched_fragments": 226, "total_fragments": 718, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Uruburuella testudinis", "strain": "strain=CCUG 63373m", "accession": "GCA_022870865.1", "taxid": 1282863, "species_taxid": 1282863, "relation_to_type": "type", "validated": true, "ani": 77.9939, "matched_fragments": 275, "total_fragments": 718, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 92.2, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900187105.1", "gtdb_species": "s__Eikenella corrodens", "ani": 99.929, "matched_fragments": 711, "total_fragments": 718, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Eikenella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.96", "min_intra_species_ani": "95.30", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 23, "status": "conclusive" }, { "accession": "GCF_001648475.1", "gtdb_species": "s__Eikenella halliae", "ani": 93.1113, "matched_fragments": 614, "total_fragments": 718, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Eikenella", "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_003990355.1", "gtdb_species": "s__Eikenella corrodens_B", "ani": 92.9823, "matched_fragments": 604, "total_fragments": 718, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Eikenella", "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_008805035.1", "gtdb_species": "s__Eikenella exigua", "ani": 91.9945, "matched_fragments": 552, "total_fragments": 718, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Eikenella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.49", "min_intra_species_ani": "95.37", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.91", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_001648355.1", "gtdb_species": "s__Eikenella longinqua", "ani": 86.2345, "matched_fragments": 571, "total_fragments": 718, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Eikenella", "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_016025525.2", "gtdb_species": "s__Eikenella sp016025525", "ani": 85.7078, "matched_fragments": 568, "total_fragments": 718, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Eikenella", "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_000190695.1", "gtdb_species": "s__Kingella_A denitrificans", "ani": 81.3622, "matched_fragments": 263, "total_fragments": 718, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Neisseriaceae;g__Kingella_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.63", "min_intra_species_ani": "96.04", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 36.0, "optimum_ph": null, "genome_size": 2244536.692, "gc_content": 55.7, "coding_genes": 2076.0, "rRNA16S_genes": 4.0, "tRNA_genes": 51.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 1.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Eikenella", "corrodens", "ATCC", "23834" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }