{ "type": "genome", "identifier": "GCF_001598855.1", "organism": "Pluralibacter gergoviae ATCC 33028 = NBRC 105706", "title": "Pluralibacter gergoviae ATCC 33028 = NBRC 105706", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001598855.1", "bioproject": "PRJNA224116", "biosample": "SAMD00046898", "wgs_master": "BCZS00000000.1", "refseq_category": "na", "taxid": "1354260", "species_taxid": "61647", "organism_name": "Pluralibacter gergoviae ATCC 33028 = NBRC 105706", "infraspecific_name": "strain=NBRC 105706", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/03/11", "asm_name": "ASM159885v1", "asm_submitter": "National Institute of Technology and Evaluation", "gbrs_paired_asm": "GCA_001598855.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/598/855/GCF_001598855.1_ASM159885v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5662775", "genome_size_ungapped": "5662775", "gc_percent": "58.500000", "replicon_count": "0", "scaffold_count": "104", "contig_count": "104", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001598855.1-RS_2024_12_23", "annotation_date": "2024-12-23", "total_gene_count": "5478", "protein_coding_gene_count": "5256", "non_coding_gene_count": "108", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-03-11", "dateModified": "2016-03-11", "datePublished": "2016-03-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Pluralibacter gergoviae ATCC 33028 = NBRC 105706" ], "sample_taxid": [ "1354260" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.595 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 97.92, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5662775", "Number of Sequences": "104", "Longest Sequences (bp)": "568458", "N50 (bp)": "158415", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.6", "Number of CDSs": "5295", "Average Protein Length": "313.4", "Coding Ratio (%)": "87.9", "Number of rRNAs": "6", "Number of tRNAs": "81", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pluralibacter gergoviae", "strain": "strain=NBRC 105706", "accession": "GCA_001598855.1", "taxid": 61647, "species_taxid": 61647, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1830, "total_fragments": 1836, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Klebsiella quasipneumoniae", "strain": "strain=DSM 28211", "accession": "GCA_020115515.1", "taxid": 1463165, "species_taxid": 1463165, "relation_to_type": "type", "validated": true, "ani": 82.1983, "matched_fragments": 987, "total_fragments": 1836, "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": 82.1885, "matched_fragments": 1007, "total_fragments": 1836, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella quasipneumoniae subsp. quasipneumoniae", "strain": "strain=01A030", "accession": "GCA_000751755.1", "taxid": 1667327, "species_taxid": 1463165, "relation_to_type": "type", "validated": true, "ani": 82.1374, "matched_fragments": 999, "total_fragments": 1836, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella quasipneumoniae", "strain": "strain=FDAARGOS_1503", "accession": "GCA_020099175.1", "taxid": 1463165, "species_taxid": 1463165, "relation_to_type": "type", "validated": true, "ani": 82.1045, "matched_fragments": 1006, "total_fragments": 1836, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella quasipneumoniae subsp. quasipneumoniae", "strain": "strain=01A030T", "accession": "GCA_020525925.1", "taxid": 1667327, "species_taxid": 1463165, "relation_to_type": "type", "validated": true, "ani": 82.1023, "matched_fragments": 1018, "total_fragments": 1836, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella quasipneumoniae subsp. similipneumoniae", "strain": "strain=07A044T", "accession": "GCA_020525685.1", "taxid": 1463164, "species_taxid": 1463165, "relation_to_type": "type", "validated": true, "ani": 82.04, "matched_fragments": 966, "total_fragments": 1836, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella quasipneumoniae subsp. similipneumoniae", "strain": "strain=07A044", "accession": "GCA_000613225.1", "taxid": 1463164, "species_taxid": 1463165, "relation_to_type": "type", "validated": true, "ani": 82.0303, "matched_fragments": 960, "total_fragments": 1836, "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": 81.9272, "matched_fragments": 883, "total_fragments": 1836, "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": 81.8568, "matched_fragments": 916, "total_fragments": 1836, "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": 81.8489, "matched_fragments": 976, "total_fragments": 1836, "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": 81.8147, "matched_fragments": 982, "total_fragments": 1836, "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": 81.7784, "matched_fragments": 946, "total_fragments": 1836, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Klebsiella pneumoniae subsp. rhinoscleromatis", "strain": "strain=ATCC 13884", "accession": "GCA_000163455.1", "taxid": 39831, "species_taxid": 573, "relation_to_type": "type", "validated": true, "ani": 81.7783, "matched_fragments": 940, "total_fragments": 1836, "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": 81.5683, "matched_fragments": 905, "total_fragments": 1836, "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": 81.5487, "matched_fragments": 870, "total_fragments": 1836, "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": 81.5002, "matched_fragments": 890, "total_fragments": 1836, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter roggenkampii", "strain": "strain=FDAARGOS 1430", "accession": "GCA_019047025.1", "taxid": 1812935, "species_taxid": 1812935, "relation_to_type": "type", "validated": true, "ani": 81.4684, "matched_fragments": 901, "total_fragments": 1836, "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": 81.345, "matched_fragments": 837, "total_fragments": 1836, "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": 81.3015, "matched_fragments": 846, "total_fragments": 1836, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yokenella regensburgei", "strain": "strain=ATCC 49455", "accession": "GCA_000735455.1", "taxid": 158877, "species_taxid": 158877, "relation_to_type": "type", "validated": true, "ani": 81.1968, "matched_fragments": 809, "total_fragments": 1836, "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": 81.0829, "matched_fragments": 866, "total_fragments": 1836, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Yokenella regensburgei", "strain": "strain=NCTC11966", "accession": "GCA_900460805.1", "taxid": 158877, "species_taxid": 158877, "relation_to_type": "type", "validated": true, "ani": 81.0286, "matched_fragments": 859, "total_fragments": 1836, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudocitrobacter vendiensis", "strain": "strain=type strain: CPO20170097", "accession": "GCA_943590815.1", "taxid": 2488306, "species_taxid": 2488306, "relation_to_type": "type", "validated": true, "ani": 80.893, "matched_fragments": 778, "total_fragments": 1836, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 97.92, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001598855.1", "gtdb_species": "s__Pluralibacter gergoviae", "ani": 100.0, "matched_fragments": 1830, "total_fragments": 1836, "gtdb_taxonomy": 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"gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "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_001984825.2", "gtdb_species": "s__Enterobacter chengduensis", "ani": 81.8757, "matched_fragments": 914, "total_fragments": 1836, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.11", "min_intra_species_ani": "95.58", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.79", "num_clustered_genomes": 24, "status": "-" }, { "accession": "GCA_014156375.1", "gtdb_species": "s__Scandinavium sp014156375", "ani": 81.8506, "matched_fragments": 915, "total_fragments": 1836, "gtdb_taxonomy": 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