{ "type": "genome", "identifier": "GCA_938045985.1", "organism": "uncultured Citrobacter sp.", "title": "uncultured Citrobacter sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "European Bioinformatics Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCA_938045985.1", "bioproject": "PRJEB51075", "biosample": "SAMEA14084742", "wgs_master": "CALIXR000000000.1", "refseq_category": "na", "taxid": "200446", "species_taxid": "200446", "organism_name": "uncultured Citrobacter sp.", "infraspecific_name": "", "isolate": "ERR589530_bin.78_CONCOCT_v1.1_MAG", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/01/12", "asm_name": "ERR589530_bin.78_CONCOCT_v1.1_MAG", "submitter": "European Bioinformatics Institute", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/938/045/985/GCA_938045985.1_ERR589530_bin.78_CONCOCT_v1.1_MAG", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-01-12", "dateModified": "2023-01-12", "datePublished": "2023-01-12", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Citrobacter sp." ], "sample_taxid": [ "200446" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "1.530 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 61.11, "contamination": 8.33, "strain_heterogeneity": 50.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "5312036", "Number of Sequences": "379", "Longest Sequences (bp)": "84099", "N50 (bp)": "26716", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "52.1", "Number of CDSs": "4716", "Average Protein Length": "309.3", "Coding Ratio (%)": "82.4", "Number of rRNAs": "0", "Number of tRNAs": "26", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Citrobacter braakii", "strain": "strain=ATCC 51113", "accession": "GCA_002075345.1", "taxid": 57706, "species_taxid": 57706, "relation_to_type": "type", "validated": true, "ani": 98.5402, "matched_fragments": 1320, "total_fragments": 1581, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Citrobacter braakii", "strain": "strain=FDAARGOS 1421", "accession": "GCA_019048805.1", "taxid": 57706, "species_taxid": 57706, "relation_to_type": "type", "validated": true, "ani": 98.4952, "matched_fragments": 1336, "total_fragments": 1581, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Citrobacter europaeus", "strain": "strain=97/79", "accession": "GCA_900079995.3", "taxid": 1914243, "species_taxid": 1914243, "relation_to_type": "type", "validated": true, "ani": 93.142, "matched_fragments": 1292, "total_fragments": 1581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter arsenatis", "strain": "strain=LY-1", "accession": "GCA_004353845.1", "taxid": 2546350, "species_taxid": 2546350, "relation_to_type": "type", "validated": true, "ani": 92.7078, "matched_fragments": 1300, "total_fragments": 1581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter portucalensis", "strain": "strain=A60", "accession": "GCA_002042885.1", "taxid": 1639133, "species_taxid": 1639133, "relation_to_type": "type", "validated": true, "ani": 92.2177, "matched_fragments": 1218, "total_fragments": 1581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter freundii", "strain": "strain=ATCC 8090", "accession": "GCA_011064845.1", "taxid": 546, "species_taxid": 546, "relation_to_type": "type", "validated": true, "ani": 92.0241, "matched_fragments": 1267, "total_fragments": 1581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter freundii", "strain": "strain=NBRC 12681", "accession": "GCA_000759735.1", "taxid": 546, "species_taxid": 546, "relation_to_type": "type", "validated": true, "ani": 92.0205, "matched_fragments": 1243, "total_fragments": 1581, "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": 82.3282, "matched_fragments": 938, "total_fragments": 1581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter quasimori", "strain": "strain=090044", "accession": "GCA_003964905.1", "taxid": 2838947, "species_taxid": 2838947, "relation_to_type": "type", "validated": true, "ani": 82.1634, "matched_fragments": 813, "total_fragments": 1581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salmonella enterica subsp. enterica", "strain": "strain=PartC-Senterica-RM8376", "accession": "GCA_022869965.1", "taxid": 59201, "species_taxid": 28901, "relation_to_type": "suspected-type", "validated": true, "ani": 82.1029, "matched_fragments": 896, "total_fragments": 1581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter mori", "strain": "strain=LMG 25706", "accession": "GCA_000211415.1", "taxid": 539813, "species_taxid": 539813, "relation_to_type": "type", "validated": true, "ani": 82.0903, "matched_fragments": 779, "total_fragments": 1581, "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": 81.7644, "matched_fragments": 770, "total_fragments": 1581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter bugandensis", "strain": "", "accession": "GCA_900324475.1", "taxid": 881260, "species_taxid": 881260, "relation_to_type": "type", "validated": true, "ani": 81.5487, "matched_fragments": 782, "total_fragments": 1581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter bugandensis", "strain": "strain=FDAARGOS 1427", "accession": "GCA_019046905.1", "taxid": 881260, "species_taxid": 881260, "relation_to_type": "type", "validated": true, "ani": 81.4988, "matched_fragments": 797, "total_fragments": 1581, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter roggenkampii", "strain": "strain=DSM 16690", "accession": "GCA_024390995.1", "taxid": 1812935, "species_taxid": 1812935, "relation_to_type": "type", "validated": true, "ani": 81.4784, "matched_fragments": 792, "total_fragments": 1581, "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": 81.3461, "matched_fragments": 785, "total_fragments": 1581, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 61.11, "contamination": 8.33, "strain_heterogeneity": 50.0 }, "gtdb_result": [ { "accession": "GCF_002075345.1", "gtdb_species": "s__Citrobacter braakii", "ani": 98.5402, "matched_fragments": 1320, "total_fragments": 1581, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Citrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.63", "min_intra_species_ani": "96.30", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.77", "num_clustered_genomes": 154, "status": "conclusive" }, { "accession": "GCF_900079995.3", "gtdb_species": "s__Citrobacter europaeus", "ani": 93.142, "matched_fragments": 1292, "total_fragments": 1581, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Citrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.13", "min_intra_species_ani": "99.04", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 21, "status": "-" }, { "accession": "GCF_004353845.1", "gtdb_species": "s__Citrobacter freundii_E", "ani": 92.6849, "matched_fragments": 1302, "total_fragments": 1581, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Citrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.27", "min_intra_species_ani": "99.27", 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