{ "type": "genome", "identifier": "GCF_900460625.1", "organism": "Actinobacillus seminis", "title": "Actinobacillus seminis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900460625.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4076732", "wgs_master": "UFSB00000000.1", "refseq_category": "reference genome", "taxid": "722", "species_taxid": "722", "organism_name": "Actinobacillus seminis", "infraspecific_name": "strain=NCTC10851", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/07", "asm_name": "49642_E01", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900460625.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/460/625/GCF_900460625.1_49642_E01", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2467403", "genome_size_ungapped": "2467403", "gc_percent": "40.500000", "replicon_count": "0", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900460625.1-RS_2024_04_27", "annotation_date": "2024-04-27", "total_gene_count": "2371", "protein_coding_gene_count": "2176", "non_coding_gene_count": "82", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-08-07", "dateModified": "2018-08-07", "datePublished": "2018-08-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinobacillus seminis" ], "sample_taxid": [ "722" ], "sample_host_organism": [ "Sheep" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.692 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2467403", "Number of Sequences": "3", "Longest Sequences (bp)": "2441200", "N50 (bp)": "2441200", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.7", "Number of CDSs": "2314", "Average Protein Length": "310.0", "Coding Ratio (%)": "87.2", "Number of rRNAs": "19", "Number of tRNAs": "59", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinobacillus seminis", "strain": "strain=NCTC10851", "accession": "GCA_900460625.1", "taxid": 722, "species_taxid": 722, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 816, "total_fragments": 821, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinobacillus seminis", "strain": "strain=ATCC 15768", "accession": "GCA_002263215.1", "taxid": 722, "species_taxid": 722, "relation_to_type": "type", "validated": true, "ani": 99.9388, "matched_fragments": 774, "total_fragments": 821, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Vespertiliibacter pulmonis", "strain": "strain=CCUG 64585", "accession": "GCA_013377275.1", "taxid": 1443036, "species_taxid": 1443036, "relation_to_type": "type", "validated": true, "ani": 78.9327, "matched_fragments": 91, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pasteurella dagmatis", "strain": "strain=NCTC11617", "accession": "GCA_900186835.1", "taxid": 754, "species_taxid": 754, "relation_to_type": "type", "validated": true, "ani": 78.7789, "matched_fragments": 183, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aggregatibacter kilianii", "strain": "strain=PN_528", "accession": "GCA_003130255.1", "taxid": 2025884, "species_taxid": 2025884, "relation_to_type": "type", "validated": true, "ani": 78.741, "matched_fragments": 213, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Avibacterium gallinarum", "strain": "strain=NCTC11188", "accession": "GCA_900454485.1", "taxid": 755, "species_taxid": 755, "relation_to_type": "type", "validated": true, "ani": 78.6249, "matched_fragments": 244, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Avibacterium volantium", "strain": "strain=NCTC3438", "accession": "GCA_900635775.1", "taxid": 762, "species_taxid": 762, "relation_to_type": "type", "validated": true, "ani": 78.5882, "matched_fragments": 242, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Avibacterium avium", "strain": "strain=NCTC 11297", "accession": "GCA_900454535.1", "taxid": 751, "species_taxid": 751, "relation_to_type": "type", "validated": true, "ani": 78.4815, "matched_fragments": 221, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rodentibacter haemolyticus", "strain": "strain=DSM 111151", "accession": "GCA_015356115.1", "taxid": 2778911, "species_taxid": 2778911, "relation_to_type": "type", "validated": true, "ani": 78.2564, "matched_fragments": 184, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aggregatibacter aphrophilus", "strain": "strain=NCTC5906", "accession": "GCA_900636915.1", "taxid": 732, "species_taxid": 732, "relation_to_type": "type", "validated": true, "ani": 78.2336, "matched_fragments": 206, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Avibacterium gallinarum", "strain": "strain=DSM 17481", "accession": "GCA_004362535.1", "taxid": 755, "species_taxid": 755, "relation_to_type": "type", "validated": true, "ani": 78.1944, "matched_fragments": 235, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gallibacterium anatis", "strain": "strain=NCTC11413", "accession": "GCA_900450735.1", "taxid": 750, "species_taxid": 750, "relation_to_type": "type", "validated": true, "ani": 78.1885, "matched_fragments": 142, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Avibacterium gallinarum", "strain": "strain=NCTC 11188", "accession": "GCA_002921135.1", "taxid": 755, "species_taxid": 755, "relation_to_type": "type", "validated": true, "ani": 78.0555, "matched_fragments": 230, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pasteurella dagmatis", "strain": "strain=ATCC 43325", "accession": "GCA_000163475.1", "taxid": 754, "species_taxid": 754, "relation_to_type": "type", "validated": true, "ani": 78.0447, "matched_fragments": 177, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cricetibacter osteomyelitidis", "strain": "strain=DSM 28404", "accession": "GCA_004340985.1", "taxid": 1521931, "species_taxid": 1521931, "relation_to_type": "type", "validated": true, "ani": 77.6985, "matched_fragments": 194, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gallibacterium anatis", "strain": "strain=F149", "accession": "GCA_000772265.1", "taxid": 750, "species_taxid": 750, "relation_to_type": "type", "validated": true, "ani": 77.3434, "matched_fragments": 130, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gallibacterium anatis", "strain": "strain=DSM 16844", "accession": "GCA_000379785.1", "taxid": 750, "species_taxid": 750, "relation_to_type": "type", "validated": true, "ani": 77.3309, "matched_fragments": 131, "total_fragments": 821, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCF_002263215.1", "gtdb_species": "s__Actinobacillus_B seminis", "ani": 99.9388, "matched_fragments": 774, "total_fragments": 821, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Actinobacillus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_900454475.1", "gtdb_species": "s__Actinobacillus_B mairii", "ani": 93.3092, "matched_fragments": 681, "total_fragments": 821, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Actinobacillus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", 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"98.34", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.85", "num_clustered_genomes": 61, "status": "-" }, { "accession": "GCF_004345745.1", "gtdb_species": "s__Nicoletella semolina", "ani": 79.2289, "matched_fragments": 86, "total_fragments": 821, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Nicoletella", "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_013377275.1", "gtdb_species": "s__Vespertiliibacter pulmonis", "ani": 79.1628, "matched_fragments": 93, "total_fragments": 821, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Vespertiliibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", 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"mean_intra_species_af": "0.98", "min_intra_species_af": "0.96", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900454535.1", "gtdb_species": "s__Avibacterium avium", "ani": 78.5924, "matched_fragments": 224, "total_fragments": 821, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Avibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.69", "min_intra_species_ani": "95.67", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.83", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_000752995.2", "gtdb_species": "s__Necropsobacter massiliensis_B", "ani": 78.3384, "matched_fragments": 234, "total_fragments": 821, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Necropsobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", 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"mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_004340985.1", "gtdb_species": "s__Cricetibacter osteomyelitidis", "ani": 77.763, "matched_fragments": 190, "total_fragments": 821, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Cricetibacter", "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_001038205.1", "gtdb_species": "s__Muribacter muris", "ani": 77.7076, "matched_fragments": 95, "total_fragments": 821, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Muribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.52", "min_intra_species_ani": "96.51", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.84", "num_clustered_genomes": 5, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.301, "cell_length": 0.02, "doubling_h": -0.125, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": null, "genome_size": 2373305.944, "gc_content": 40.836, "coding_genes": 2122.216, "rRNA16S_genes": 5.85, "tRNA_genes": 60.8, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "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": 0.857, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.142, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Actinobacillus", "seminis" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }