{ "type": "genome", "identifier": "GCA_948441585.1", "organism": "Prevotella copri", "title": "Prevotella copri", "description": "derived from metagenome; genome length too small", "data type": "Genome sequencing and assembly", "organization": "EMG", "publication": [ {} ], "properties": { "assembly_accession": "GCA_948441585.1", "bioproject": "PRJEB58054", "biosample": "SAMEA112353580", "wgs_master": "CAOJQH000000000.1", "refseq_category": "na", "taxid": "165179", "species_taxid": "165179", "organism_name": "Prevotella copri", "infraspecific_name": "", "isolate": "SRR17622769_bin.29_metawrap_v1.3_MAG", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/02/03", "asm_name": "SRR17622769_bin.29_metawrap_v1.3_MAG", "submitter": "EMG", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/948/441/585/GCA_948441585.1_SRR17622769_bin.29_metawrap_v1.3_MAG", "excluded_from_refseq": "derived from metagenome; genome length too small", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-02-03", "dateModified": "2023-02-03", "datePublished": "2023-02-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Prevotella copri" ], "sample_taxid": [ "165179" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada" ], "sample_host_location_id": [], "data_size": "0.447 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 36.57, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1544234", "Number of Sequences": "187", "Longest Sequences (bp)": "47054", "N50 (bp)": "11206", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "45.1", "Number of CDSs": "1020", "Average Protein Length": "375.6", "Coding Ratio (%)": "74.4", "Number of rRNAs": "0", "Number of tRNAs": "30", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Prevotella copri", "strain": "strain=DSM 18205", "accession": "GCA_025151535.1", "taxid": 165179, "species_taxid": 165179, "relation_to_type": "suspected-type", "validated": true, "ani": 96.1706, "matched_fragments": 339, "total_fragments": 420, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Prevotella copri", "strain": "strain=DSM 18205", "accession": "GCA_000157935.1", "taxid": 165179, "species_taxid": 165179, "relation_to_type": "suspected-type", "validated": true, "ani": 96.1431, "matched_fragments": 343, "total_fragments": 420, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Prevotella copri", "strain": "strain=DSM 18205", "accession": "GCA_009495405.1", "taxid": 165179, "species_taxid": 165179, "relation_to_type": "suspected-type", "validated": true, "ani": 96.1301, "matched_fragments": 339, "total_fragments": 420, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Prevotella hominis", "strain": "strain=BCRC 81118", "accession": "GCA_004535825.1", "taxid": 2518605, "species_taxid": 2518605, "relation_to_type": "type", "validated": true, "ani": 83.4049, "matched_fragments": 218, "total_fragments": 420, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella stercorea", "strain": "strain=DSM 18206", "accession": "GCA_000235885.1", "taxid": 363265, "species_taxid": 363265, "relation_to_type": "suspected-type", "validated": true, "ani": 77.3788, "matched_fragments": 62, "total_fragments": 420, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 36.57, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_015074785.1", "gtdb_species": "s__Prevotella sp015074785", "ani": 96.2091, "matched_fragments": 364, "total_fragments": 420, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.6733, "mean_intra_species_ani": "96.50", "min_intra_species_ani": "95.88", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.71", "num_clustered_genomes": 45, "status": "inconclusive" }, { "accession": "GCF_000157935.1", "gtdb_species": "s__Prevotella copri", "ani": 96.1431, "matched_fragments": 343, "total_fragments": 420, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.6733, "mean_intra_species_ani": "96.34", "min_intra_species_ani": "95.85", "mean_intra_species_af": "0.75", "min_intra_species_af": "0.69", "num_clustered_genomes": 97, "status": "inconclusive" }, { "accession": "GCF_019127135.1", "gtdb_species": "s__Prevotella sp900551275", "ani": 95.2281, "matched_fragments": 357, "total_fragments": 420, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0063, "mean_intra_species_ani": "98.12", "min_intra_species_ani": "96.96", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.77", "num_clustered_genomes": 7, "status": "inconclusive" }, { "accession": "GCA_900557255.1", "gtdb_species": "s__Prevotella sp900557255", "ani": 95.0316, "matched_fragments": 252, "total_fragments": 420, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "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": "inconclusive" }, { "accession": "GCF_009494395.1", "gtdb_species": "s__Prevotella sp900546535", "ani": 86.1714, "matched_fragments": 301, "total_fragments": 420, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.78", "min_intra_species_ani": "96.11", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.79", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCA_900544825.1", "gtdb_species": "s__Prevotella sp900544825", "ani": 85.6969, "matched_fragments": 271, "total_fragments": 420, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.36", "min_intra_species_ani": "98.76", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.84", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_019249655.1", "gtdb_species": "s__Prevotella sp900767615", "ani": 85.6576, "matched_fragments": 289, "total_fragments": 420, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.47", "min_intra_species_ani": "95.77", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.75", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_002224675.1", "gtdb_species": "s__Prevotella copri_A", "ani": 85.5148, "matched_fragments": 289, "total_fragments": 420, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.28", "min_intra_species_ani": "96.07", "mean_intra_species_af": "0.78", "min_intra_species_af": "0.74", "num_clustered_genomes": 13, "status": "-" }, { "accession": "GCA_900551985.1", "gtdb_species": "s__Prevotella sp900551985", "ani": 84.6839, "matched_fragments": 264, "total_fragments": 420, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.28", "min_intra_species_ani": "99.28", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900557035.1", "gtdb_species": "s__Prevotella sp900557035", "ani": 83.9386, "matched_fragments": 196, "total_fragments": 420, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.84", "min_intra_species_ani": "97.17", "mean_intra_species_af": "0.78", "min_intra_species_af": "0.68", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.081, "cell_length": -0.023, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 34.75, "optimum_ph": 8.0, "genome_size": 3507873.0, "gc_content": 44.9, "coding_genes": 2508.172, "rRNA16S_genes": 4.0, "tRNA_genes": 50.875, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "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 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Bacteroidaceae", "g__Prevotella", "s__Prevotella copri_I" ], "_genome_taxon": [ "Prevotella", "copri", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Bacteroidaceae", "g__Prevotella", "s__Prevotella copri_I", "Bacteria", "Bacteroidota", "Bacteroidia", "Bacteroidales", "Bacteroidaceae", "Prevotella", "Prevotella", "copri", "I" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }