{ "type": "genome", "identifier": "GCF_024390995.1", "organism": "Enterobacter roggenkampii", "title": "Enterobacter roggenkampii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Rochester Institute of Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_024390995.1", "bioproject": "PRJNA224116", "biosample": "SAMN28813300", "wgs_master": "JANFCY000000000.1", "refseq_category": "na", "taxid": "1812935", "species_taxid": "1812935", "organism_name": "Enterobacter roggenkampii", "infraspecific_name": "strain=DSM 16690", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/07/24", "asm_name": "ASM2439099v1", "asm_submitter": "Rochester Institute of Technology", "gbrs_paired_asm": "GCA_024390995.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/024/390/995/GCF_024390995.1_ASM2439099v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4861873", "genome_size_ungapped": "4861873", "gc_percent": "56.000000", "replicon_count": "0", "scaffold_count": "162", "contig_count": "162", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_024390995.1-RS_2024_09_08", "annotation_date": "2024-09-08", "total_gene_count": "4816", "protein_coding_gene_count": "4604", "non_coding_gene_count": "86", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-07-24", "dateModified": "2022-07-24", "datePublished": "2022-07-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterobacter roggenkampii" ], "sample_taxid": [ "1812935" ], "sample_host_organism": [ "missing" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Rochester" ], "sample_host_location_id": [], "data_size": "1.385 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4861873", "Number of Sequences": "162", "Longest Sequences (bp)": "228811", "N50 (bp)": "104028", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "55.8", "Number of CDSs": "4589", "Average Protein Length": "310.6", "Coding Ratio (%)": "88.0", "Number of rRNAs": "1", "Number of tRNAs": "74", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterobacter roggenkampii", "strain": "strain=DSM 16690", "accession": "GCA_024390995.1", "taxid": 1812935, "species_taxid": 1812935, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1544, "total_fragments": 1552, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterobacter roggenkampii", "strain": "strain=DSM 16690", "accession": "GCA_001729805.1", "taxid": 1812935, "species_taxid": 1812935, "relation_to_type": "type", "validated": true, "ani": 98.5148, "matched_fragments": 1354, "total_fragments": 1552, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterobacter roggenkampii", "strain": "strain=FDAARGOS 1430", "accession": "GCA_019047025.1", "taxid": 1812935, "species_taxid": 1812935, "relation_to_type": "type", "validated": true, "ani": 98.4709, "matched_fragments": 1356, "total_fragments": 1552, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterobacter vonholyi", "strain": "strain=E13", "accession": "GCA_008364555.1", "taxid": 2797505, "species_taxid": 2797505, "relation_to_type": "type", "validated": true, "ani": 94.2992, "matched_fragments": 1283, "total_fragments": 1552, "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": 93.2741, "matched_fragments": 1284, "total_fragments": 1552, "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": 93.2647, "matched_fragments": 1276, "total_fragments": 1552, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter chengduensis", "strain": "strain=WCHECl-C4 = WCHECh050004", "accession": "GCA_001984825.2", "taxid": 2494701, "species_taxid": 2494701, "relation_to_type": "type", "validated": true, "ani": 92.9091, "matched_fragments": 1309, "total_fragments": 1552, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter sichuanensis", "strain": "strain=WCHECL1597", "accession": "GCA_002939185.1", "taxid": 2071710, "species_taxid": 2071710, "relation_to_type": "type", "validated": true, "ani": 92.0056, "matched_fragments": 1238, "total_fragments": 1552, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter sichuanensis", "strain": "strain=WCHECL1597", "accession": "GCA_025002605.1", "taxid": 2071710, "species_taxid": 2071710, "relation_to_type": "type", "validated": true, "ani": 91.9726, "matched_fragments": 1275, "total_fragments": 1552, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter kobei", "strain": "strain=DSM 13645", "accession": "GCA_001729765.1", "taxid": 208224, "species_taxid": 208224, "relation_to_type": "type", "validated": true, "ani": 90.7354, "matched_fragments": 1284, "total_fragments": 1552, "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": 89.1859, "matched_fragments": 1203, "total_fragments": 1552, "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": 89.1629, "matched_fragments": 1274, "total_fragments": 1552, "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": 88.4976, "matched_fragments": 1209, "total_fragments": 1552, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001729805.1", "gtdb_species": "s__Enterobacter roggenkampii", "ani": 98.5003, "matched_fragments": 1355, "total_fragments": 1552, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.21", "min_intra_species_ani": "95.50", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.83", "num_clustered_genomes": 197, "status": "conclusive" }, { "accession": "GCF_009755685.1", "gtdb_species": "s__Enterobacter sp000568095", "ani": 94.3053, "matched_fragments": 1286, "total_fragments": 1552, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0476, "mean_intra_species_ani": "98.37", "min_intra_species_ani": "98.04", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.92", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_008364555.1", "gtdb_species": "s__Enterobacter vonholyi", "ani": 94.2992, "matched_fragments": 1283, "total_fragments": 1552, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.34", "min_intra_species_ani": "98.09", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.93", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_008364625.1", "gtdb_species": "s__Enterobacter dykesii", "ani": 93.4851, "matched_fragments": 1252, "total_fragments": 1552, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 96.5795, "mean_intra_species_ani": "99.13", "min_intra_species_ani": "97.97", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", 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