{ "type": "genome", "identifier": "GCF_005671395.1", "organism": "Jejubacter calystegiae", "title": "Jejubacter calystegiae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Korea Research Institute of Bioscience and Biotechnology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_005671395.1", "bioproject": "PRJNA224116", "biosample": "SAMN11650091", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2579935", "species_taxid": "2579935", "organism_name": "Jejubacter calystegiae", "infraspecific_name": "strain=KSNA2", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/05/23", "asm_name": "ASM567139v1", "asm_submitter": "Korea Research Institute of Bioscience and Biotechnology", "gbrs_paired_asm": "GCA_005671395.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/005/671/395/GCF_005671395.1_ASM567139v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5182800", "genome_size_ungapped": "5182800", "gc_percent": "56.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_005671395.1-RS_2024_04_03", "annotation_date": "2024-04-03", "total_gene_count": "4885", "protein_coding_gene_count": "4687", "non_coding_gene_count": "112", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-05-23", "dateModified": "2019-05-23", "datePublished": "2019-05-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Jejubacter calystegiae" ], "sample_taxid": [ "2579935" ], "sample_host_organism": [ "Calystegia soldanella" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea:Jeju,Chuja islands" ], "sample_host_location_id": [], "data_size": "1.458 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)": "5182800", "Number of Sequences": "1", "Longest Sequences (bp)": "5182800", "N50 (bp)": "5182800", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "56.1", "Number of CDSs": "4749", "Average Protein Length": "319.2", "Coding Ratio (%)": "87.8", "Number of rRNAs": "22", "Number of tRNAs": "87", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Cronobacter dublinensis subsp. lactaridi", "strain": "strain=LMG 23825", "accession": "GCA_000409345.1", "taxid": 413499, "species_taxid": 413497, "relation_to_type": "type", "validated": true, "ani": 80.147, "matched_fragments": 686, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter dublinensis subsp. lausannensis", "strain": "strain=LMG 23824", "accession": "GCA_000409365.1", "taxid": 413500, "species_taxid": 413497, "relation_to_type": "type", "validated": true, "ani": 80.1391, "matched_fragments": 683, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella pneumoniae", "strain": "strain=PartO-Kpneumoniae-RM8376", "accession": "GCA_022869665.1", "taxid": 573, "species_taxid": 573, "relation_to_type": "type", "validated": true, "ani": 79.9338, "matched_fragments": 681, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter muytjensii", "strain": "strain=ATCC 51329", "accession": "GCA_001277195.1", "taxid": 413501, "species_taxid": 413501, "relation_to_type": "type", "validated": true, "ani": 79.9257, "matched_fragments": 686, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter dublinensis subsp. dublinensis", "strain": "strain=LMG 23823", "accession": "GCA_001277235.1", "taxid": 413498, "species_taxid": 413497, "relation_to_type": "type", "validated": true, "ani": 79.9128, "matched_fragments": 681, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Siccibacter turicensis", "strain": "strain=LMG 23730", "accession": "GCA_000463155.2", "taxid": 357233, "species_taxid": 357233, "relation_to_type": "type", "validated": true, "ani": 79.8767, "matched_fragments": 637, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter rodentium", "strain": "strain=DSM 16636", "accession": "GCA_021278985.1", "taxid": 67825, "species_taxid": 67825, "relation_to_type": "type", "validated": true, "ani": 79.8605, "matched_fragments": 682, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter malonaticus", "strain": "strain=LMG 23826", "accession": "GCA_000409305.1", "taxid": 413503, "species_taxid": 413503, "relation_to_type": "type", "validated": true, "ani": 79.8407, "matched_fragments": 658, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella pneumoniae", "strain": "strain=ATCC 13883", "accession": "GCA_000742135.1", "taxid": 573, "species_taxid": 573, "relation_to_type": "type", "validated": true, "ani": 79.8259, "matched_fragments": 682, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Siccibacter colletis", "strain": "strain=1383", "accession": "GCA_000696575.1", "taxid": 1505757, "species_taxid": 1505757, "relation_to_type": "type", "validated": true, "ani": 79.7186, "matched_fragments": 657, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter rodentium", "strain": "strain=NBRC 105723", "accession": "GCA_000759815.1", "taxid": 67825, "species_taxid": 67825, "relation_to_type": "type", "validated": true, "ani": 79.7153, "matched_fragments": 663, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter muytjensii", "strain": "strain=ATCC 51329", "accession": "GCA_000409285.1", "taxid": 413501, "species_taxid": 413501, "relation_to_type": "type", "validated": true, "ani": 79.6808, "matched_fragments": 676, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter sakazakii", "strain": "strain=ATCC 29544", "accession": "GCA_001971035.1", "taxid": 28141, "species_taxid": 28141, "relation_to_type": "type", "validated": true, "ani": 79.6772, "matched_fragments": 621, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter dublinensis subsp. dublinensis", "strain": "strain=LMG 23823", "accession": "GCA_000409225.1", "taxid": 413498, "species_taxid": 413497, "relation_to_type": "type", "validated": true, "ani": 79.6707, "matched_fragments": 680, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter asburiae", "strain": "strain=FDAARGOS_892", "accession": "GCA_016027695.1", "taxid": 61645, "species_taxid": 61645, "relation_to_type": "type", "validated": true, "ani": 79.6536, "matched_fragments": 637, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella pneumoniae subsp. pneumoniae", "strain": "strain=ATCC 13883", "accession": "GCA_000788015.1", "taxid": 72407, "species_taxid": 573, "relation_to_type": "type", "validated": true, "ani": 79.6527, "matched_fragments": 694, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter asburiae", "strain": "strain=ATCC 35953", "accession": "GCA_001521715.1", "taxid": 61645, "species_taxid": 61645, "relation_to_type": "type", "validated": true, "ani": 79.6479, "matched_fragments": 633, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter rodentium", "strain": "strain=DSM 16636", "accession": "GCA_015965555.1", "taxid": 67825, "species_taxid": 67825, "relation_to_type": "type", "validated": true, "ani": 79.636, "matched_fragments": 672, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter rodentium", "strain": "strain=ATCC 51116", "accession": "GCA_015965415.1", "taxid": 67825, "species_taxid": 67825, "relation_to_type": "type", "validated": true, "ani": 79.628, "matched_fragments": 673, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter hormaechei", "strain": "strain=FDAARGOS 1433", "accession": "GCA_019048245.1", "taxid": 158836, "species_taxid": 158836, "relation_to_type": "suspected-type", "validated": true, "ani": 79.5997, "matched_fragments": 648, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella pneumoniae subsp. pneumoniae", "strain": "strain=NBRC 14940", "accession": "GCA_001590945.1", "taxid": 72407, "species_taxid": 573, "relation_to_type": "type", "validated": true, "ani": 79.5314, "matched_fragments": 674, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter wuhouensis", "strain": "strain=WCHEW120002", "accession": "GCA_004331265.1", "taxid": 2529381, "species_taxid": 2529381, "relation_to_type": "type", "validated": true, "ani": 79.4723, "matched_fragments": 657, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kluyvera georgiana", "strain": "strain=ATCC 51603", "accession": "GCA_001654985.1", "taxid": 73098, "species_taxid": 73098, "relation_to_type": "type", "validated": true, "ani": 79.3491, "matched_fragments": 638, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter cloacae", "strain": "strain=DSM 30054", "accession": "GCA_021469225.1", "taxid": 550, "species_taxid": 550, "relation_to_type": "type", "validated": true, "ani": 79.2735, "matched_fragments": 650, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mixta gaviniae", "strain": "strain=DSM 22758", "accession": "GCA_002953195.1", "taxid": 665914, "species_taxid": 665914, "relation_to_type": "type", "validated": true, "ani": 78.9583, "matched_fragments": 547, "total_fragments": 1727, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_005671395.1", "gtdb_species": "s__Jejubacter calystegiae", "ani": 100.0, "matched_fragments": 1726, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Jejubacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.55", "min_intra_species_ani": "98.55", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_001277215.2", "gtdb_species": "s__Cronobacter malonaticus", "ani": 80.0007, "matched_fragments": 680, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Cronobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.11", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.89", "num_clustered_genomes": 62, "status": "-" }, { "accession": "GCA_000027065.2", "gtdb_species": "s__Cronobacter turicensis", "ani": 79.9795, "matched_fragments": 682, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Cronobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.17", "min_intra_species_ani": "96.06", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 18, "status": "-" }, { "accession": "GCF_000164865.1", "gtdb_species": "s__Enterobacter_B lignolyticus", "ani": 79.9699, "matched_fragments": 675, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.80", "min_intra_species_ani": "98.80", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000982825.1", "gtdb_species": "s__Cronobacter sakazakii", "ani": 79.96, "matched_fragments": 673, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Cronobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.00", "min_intra_species_ani": "97.39", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.86", "num_clustered_genomes": 440, "status": "-" }, { "accession": "GCF_001277195.1", "gtdb_species": "s__Cronobacter muytjensii", "ani": 79.9065, "matched_fragments": 684, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Cronobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.13", "min_intra_species_ani": "98.83", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.91", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_001277235.1", "gtdb_species": "s__Cronobacter dublinensis", "ani": 79.8726, "matched_fragments": 680, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Cronobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.74", "min_intra_species_ani": "96.92", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.89", "num_clustered_genomes": 42, "status": "-" }, { "accession": "GCF_000463155.2", "gtdb_species": "s__Siccibacter turicensis", "ani": 79.8723, "matched_fragments": 638, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Siccibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.74", "min_intra_species_ani": "97.87", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_000302695.1", "gtdb_species": "s__Jejubacter sp000302695", "ani": 79.8675, "matched_fragments": 702, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Jejubacter", "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_002208095.1", "gtdb_species": "s__Enterobacter cloacae_M", "ani": 79.8184, "matched_fragments": 658, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 96.7528, "mean_intra_species_ani": "98.28", "min_intra_species_ani": "96.89", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.85", "num_clustered_genomes": 84, "status": "-" }, { "accession": "GCF_000696575.1", "gtdb_species": "s__Siccibacter colletis", "ani": 79.7256, "matched_fragments": 654, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Siccibacter", "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_000759815.1", "gtdb_species": "s__Citrobacter_A rodentium", "ani": 79.7239, "matched_fragments": 663, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Citrobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.96", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.96", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_009907385.1", "gtdb_species": "s__Atlantibacter hermannii_A", "ani": 79.6809, "matched_fragments": 655, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Atlantibacter", "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": "GCA_002211745.1", "gtdb_species": "s__Kluyvera georgiana_A", "ani": 79.671, "matched_fragments": 654, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Kluyvera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.12", "min_intra_species_ani": "98.12", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014168815.1", "gtdb_species": "s__Kluyvera ascorbata_B", "ani": 79.6584, "matched_fragments": 646, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Kluyvera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.36", "min_intra_species_ani": "99.08", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCA_900635495.1", "gtdb_species": "s__Atlantibacter hermannii", "ani": 79.6274, "matched_fragments": 555, "total_fragments": 1727, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Atlantibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.95", "min_intra_species_ani": "98.59", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.90", "num_clustered_genomes": 28, "status": "-" }, { "accession": "GCF_007570865.1", "gtdb_species": "s__Atlantibacter subterranea", 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