{ "type": "genome", "identifier": "GCA_905372845.1", "organism": "Aggregatibacter sp. oral taxon 458", "title": "Aggregatibacter sp. oral taxon 458", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "EMG", "publication": [ {} ], "properties": { "assembly_accession": "GCA_905372845.1", "bioproject": "PRJEB43277", "biosample": "SAMEA8395195", "wgs_master": "CAJPQM000000000.1", "refseq_category": "na", "taxid": "712148", "species_taxid": "712148", "organism_name": "Aggregatibacter sp. oral taxon 458", "infraspecific_name": "", "isolate": "SRR9217428-mag-bin.3", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/03/26", "asm_name": "SRR9217428-mag-bin.3", "submitter": "EMG", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/905/372/845/GCA_905372845.1_SRR9217428-mag-bin.3", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-03-26", "dateModified": "2021-03-26", "datePublished": "2021-03-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Aggregatibacter sp. oral taxon 458" ], "sample_taxid": [ "712148" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not provided" ], "sample_host_location_id": [], "data_size": "0.486 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1704279", "Number of Sequences": "173", "Longest Sequences (bp)": "52165", "N50 (bp)": "13604", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "43.4", "Number of CDSs": "1481", "Average Protein Length": "309.0", "Coding Ratio (%)": "80.5", "Number of rRNAs": "1", "Number of tRNAs": "26", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Aggregatibacter segnis", "strain": "strain=NCTC10977", "accession": "GCA_900476035.1", "taxid": 739, "species_taxid": 739, "relation_to_type": "type", "validated": true, "ani": 90.3912, "matched_fragments": 392, "total_fragments": 476, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aggregatibacter segnis", "strain": "strain=ATCC 33393", "accession": "GCA_000185305.1", "taxid": 739, "species_taxid": 739, "relation_to_type": "type", "validated": true, "ani": 90.3484, "matched_fragments": 388, "total_fragments": 476, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aggregatibacter segnis", "strain": "strain=FDAARGOS_987", "accession": "GCA_016127115.1", "taxid": 739, "species_taxid": 739, "relation_to_type": "type", "validated": true, "ani": 90.3339, "matched_fragments": 389, "total_fragments": 476, "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": 86.0686, "matched_fragments": 397, "total_fragments": 476, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aggregatibacter aphrophilus", "strain": "strain=ATCC 33389", "accession": "GCA_000226495.3", "taxid": 732, "species_taxid": 732, "relation_to_type": "type", "validated": true, "ani": 85.7045, "matched_fragments": 377, "total_fragments": 476, "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": 85.6576, "matched_fragments": 373, "total_fragments": 476, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aggregatibacter actinomycetemcomitans", "strain": "strain=DSM 8324", "accession": "GCA_000372365.1", "taxid": 714, "species_taxid": 714, "relation_to_type": "type", "validated": true, "ani": 81.0412, "matched_fragments": 341, "total_fragments": 476, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aggregatibacter actinomycetemcomitans", "strain": "strain=NCTC_9710", "accession": "GCA_008085305.1", "taxid": 714, "species_taxid": 714, "relation_to_type": "type", "validated": true, "ani": 80.9589, "matched_fragments": 331, "total_fragments": 476, "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", 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"d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Aggregatibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.84", "min_intra_species_ani": "95.38", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.88", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_003130075.1", "gtdb_species": "s__Aggregatibacter segnis_A", "ani": 89.8097, "matched_fragments": 379, "total_fragments": 476, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Aggregatibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.43", "min_intra_species_ani": "95.32", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_003130255.1", "gtdb_species": "s__Aggregatibacter kilianii", "ani": 86.1077, "matched_fragments": 395, "total_fragments": 476, "gtdb_taxonomy": 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"d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Aggregatibacter", "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_003130205.1", "gtdb_species": "s__Aggregatibacter actinomycetemcomitans_A", "ani": 81.2722, "matched_fragments": 334, "total_fragments": 476, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Pasteurellaceae;g__Aggregatibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.99", "min_intra_species_ani": "96.75", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 15, "status": "-" }, { "accession": "GCF_000372365.1", "gtdb_species": "s__Aggregatibacter actinomycetemcomitans", "ani": 81.0607, "matched_fragments": 340, "total_fragments": 476, 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"coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Enterobacterales", "f__Pasteurellaceae", "g__Aggregatibacter", "s__Aggregatibacter sp000466335" ], "_genome_taxon": [ "Aggregatibacter", "sp.", "oral", "taxon", "458", "d__Bacteria", "p__Pseudomonadota", "c__Gammaproteobacteria", "o__Enterobacterales", "f__Pasteurellaceae", "g__Aggregatibacter", "s__Aggregatibacter sp000466335", "Bacteria", "Pseudomonadota", "Gammaproteobacteria", "Enterobacterales", "Pasteurellaceae", "Aggregatibacter", "Aggregatibacter", "sp000466335" ], "_meo": [ { "id": "MEO_0000467", "label": "oral cavity" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }