{ "type": "genome", "identifier": "GCF_000252855.1", "organism": "Riemerella anatipestifer ATCC 11845 = DSM 15868", "title": "Riemerella anatipestifer ATCC 11845 = DSM 15868", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Avian Disease Centre of the College of Veterinary Medicine, Sichuan Agricultural University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000252855.1", "bioproject": "PRJNA224116", "biosample": "SAMN02602991", "wgs_master": "na", "refseq_category": "na", "taxid": "693978", "species_taxid": "34085", "organism_name": "Riemerella anatipestifer ATCC 11845 = DSM 15868", "infraspecific_name": "strain=ATCC 11845", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2012/03/15", "asm_name": "ASM25285v1", "asm_submitter": "Avian Disease Centre of the College of Veterinary Medicine, Sichuan Agricultural University", "gbrs_paired_asm": "GCA_000252855.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/252/855/GCF_000252855.1_ASM25285v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2164087", "genome_size_ungapped": "2164087", "gc_percent": "35.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000252855.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "2064", "protein_coding_gene_count": "1995", "non_coding_gene_count": "49", "pubmed_id": "22628503" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2012-03-15", "dateModified": "2012-03-15", "datePublished": "2012-03-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Riemerella anatipestifer ATCC 11845 = DSM 15868" ], "sample_taxid": [ "693978" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.603 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)": "2164087", "Number of Sequences": "1", "Longest Sequences (bp)": "2164087", "N50 (bp)": "2164087", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "35.0", "Number of CDSs": "1997", "Average Protein Length": "323.9", "Coding Ratio (%)": "89.7", "Number of rRNAs": "9", "Number of tRNAs": "37", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Riemerella anatipestifer", "strain": "strain=ATCC 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103810, "relation_to_type": "type", "validated": true, "ani": 78.2074, "matched_fragments": 199, "total_fragments": 721, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium taklimakanense", "strain": "strain=NCTC13490", "accession": "GCA_900187185.1", "taxid": 536441, "species_taxid": 536441, "relation_to_type": "type", "validated": true, "ani": 78.1304, "matched_fragments": 59, "total_fragments": 721, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium ginsenosidimutans", "strain": "strain=THG 15", "accession": "GCA_024807225.1", "taxid": 687846, "species_taxid": 687846, "relation_to_type": "type", "validated": true, "ani": 78.1254, "matched_fragments": 79, "total_fragments": 721, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium phocaeense", "strain": "strain=6021061333", "accession": "GCA_900169075.1", "taxid": 1816690, "species_taxid": 1816690, "relation_to_type": 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"matched_fragments": 120, "total_fragments": 721, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Elizabethkingia occulta", "strain": "strain=G4070", "accession": "GCA_002023715.1", "taxid": 1867263, "species_taxid": 1867263, "relation_to_type": "type", "validated": true, "ani": 77.4688, "matched_fragments": 74, "total_fragments": 721, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Riemerella columbipharyngis", "strain": "strain=DSM 24015", "accession": "GCA_900101995.1", "taxid": 1071918, "species_taxid": 1071918, "relation_to_type": "type", "validated": true, "ani": 77.2157, "matched_fragments": 125, "total_fragments": 721, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chryseobacterium taihuense", "strain": "strain=CGMCC 1.10941", "accession": "GCA_900103755.1", "taxid": 1141221, "species_taxid": 1141221, "relation_to_type": "type", "validated": true, "ani": 77.0846, "matched_fragments": 72, "total_fragments": 721, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000252855.1", "gtdb_species": "s__Riemerella anatipestifer", "ani": 100.0, "matched_fragments": 719, "total_fragments": 721, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Weeksellaceae;g__Riemerella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.90", "min_intra_species_ani": "95.12", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.81", "num_clustered_genomes": 76, "status": "conclusive" }, { "accession": "GCF_009670965.1", "gtdb_species": "s__Riemerella anatipestifer_B", "ani": 94.3762, "matched_fragments": 578, "total_fragments": 721, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Weeksellaceae;g__Riemerella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.18", "min_intra_species_ani": "95.18", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009663465.1", "gtdb_species": "s__Riemerella anatipestifer_C", "ani": 93.7727, "matched_fragments": 595, "total_fragments": 721, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Weeksellaceae;g__Riemerella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.04", "min_intra_species_ani": "95.95", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.80", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_003614945.1", "gtdb_species": "s__Bergeyella_A cardium", "ani": 78.2228, "matched_fragments": 59, "total_fragments": 721, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Weeksellaceae;g__Bergeyella_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.84", "min_intra_species_ani": "98.84", 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sp002337005", "ani": 76.4592, "matched_fragments": 120, "total_fragments": 721, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Weeksellaceae;g__Cloacibacterium", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.456, "cell_length": 0.243, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": null, "genome_size": 2206155.639, "gc_content": 35.026, "coding_genes": 2003.056, "rRNA16S_genes": 2.875, "tRNA_genes": 39.667, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Riemerella", "anatipestifer", "ATCC", "11845", "=", "DSM", "15868" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }