{ "type": "genome", "identifier": "GCF_008802955.1", "organism": "Citrobacter cronae", "title": "Citrobacter cronae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University Clinics Tuebingen", "publication": [ {} ], "properties": { "assembly_accession": "GCF_008802955.1", "bioproject": "PRJNA224116", "biosample": "SAMN12512809", "wgs_master": "VOSQ00000000.1", "refseq_category": "na", "taxid": "1748967", "species_taxid": "1748967", "organism_name": "Citrobacter cronae", "infraspecific_name": "strain=Tue2-1", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/10/02", "asm_name": "ASM880295v1", "asm_submitter": "University Clinics Tuebingen", "gbrs_paired_asm": "GCA_008802955.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/802/955/GCF_008802955.1_ASM880295v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5337148", "genome_size_ungapped": "5337148", "gc_percent": "52.500000", "replicon_count": "0", "scaffold_count": "399", "contig_count": "399", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_008802955.1-RS_2024_04_07", "annotation_date": "2024-04-07", "total_gene_count": "5460", "protein_coding_gene_count": "5126", "non_coding_gene_count": "120", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-10-02", "dateModified": "2019-10-02", "datePublished": "2019-10-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Citrobacter cronae" ], "sample_taxid": [ "1748967" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [ "Screening material" ], "sample_host_disease_id": [], "sample_host_location": [ "Germany" ], "sample_host_location_id": [], "data_size": "1.527 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5337148", "Number of Sequences": "399", "Longest Sequences (bp)": "964605", "N50 (bp)": "559182", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "52.7", "Number of CDSs": "4919", "Average Protein Length": "309.8", "Coding Ratio (%)": "85.7", "Number of rRNAs": "6", "Number of tRNAs": "85", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Citrobacter europaeus", "strain": "strain=97/79", "accession": "GCA_900079995.3", "taxid": 1914243, "species_taxid": 1914243, "relation_to_type": "type", "validated": true, "ani": 91.1138, "matched_fragments": 1402, "total_fragments": 1706, "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": 91.0957, "matched_fragments": 1418, "total_fragments": 1706, "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": 90.9447, "matched_fragments": 1348, "total_fragments": 1706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter braakii", "strain": "strain=ATCC 51113", "accession": "GCA_002075345.1", "taxid": 57706, "species_taxid": 57706, "relation_to_type": "type", "validated": true, "ani": 90.9216, "matched_fragments": 1361, "total_fragments": 1706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter braakii", "strain": "strain=FDAARGOS 1421", "accession": "GCA_019048805.1", "taxid": 57706, "species_taxid": 57706, "relation_to_type": "type", "validated": true, "ani": 90.9008, "matched_fragments": 1371, "total_fragments": 1706, "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": 90.7562, "matched_fragments": 1376, "total_fragments": 1706, "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": 90.7263, "matched_fragments": 1370, "total_fragments": 1706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter freundii", "strain": "strain=MTCC 1658", "accession": "GCA_000312465.1", "taxid": 546, "species_taxid": 546, "relation_to_type": "type", "validated": true, "ani": 90.7253, "matched_fragments": 1368, "total_fragments": 1706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter freundii", "strain": "strain=ATCC 8090", "accession": "GCA_000734905.1", "taxid": 546, "species_taxid": 546, "relation_to_type": "type", "validated": true, "ani": 90.6528, "matched_fragments": 1332, "total_fragments": 1706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter youngae", "strain": "strain=CCUG 30791", "accession": "GCA_003818115.1", "taxid": 133448, "species_taxid": 133448, "relation_to_type": "type", "validated": true, "ani": 89.1276, "matched_fragments": 1317, "total_fragments": 1706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Citrobacter youngae", "strain": "strain=NCTC13709", "accession": "GCA_900638065.1", "taxid": 133448, "species_taxid": 133448, "relation_to_type": "type", "validated": true, "ani": 89.1106, "matched_fragments": 1338, "total_fragments": 1706, "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": 83.0975, "matched_fragments": 1014, "total_fragments": 1706, "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": 82.9797, "matched_fragments": 1055, "total_fragments": 1706, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter roggenkampii", "strain": "strain=DSM 16690", "accession": "GCA_024390995.1", "taxid": 1812935, 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"type", "validated": true, "ani": 81.5895, "matched_fragments": 862, "total_fragments": 1706, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_000759755.1", "gtdb_species": "s__Citrobacter werkmanii", "ani": 96.3583, "matched_fragments": 1427, "total_fragments": 1706, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Citrobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.76", "min_intra_species_ani": "96.01", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.81", "num_clustered_genomes": 67, "status": "conclusive" }, { "accession": "GCF_000155975.1", "gtdb_species": "s__Citrobacter portucalensis_A", "ani": 93.2464, "matched_fragments": 1373, "total_fragments": 1706, "gtdb_taxonomy": 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