{ "type": "genome", "identifier": "GCA_022741845.1", "organism": "Prevotella copri", "title": "Prevotella copri", "description": "derived from metagenome; genome length too small", "data type": "Genome sequencing and assembly", "organization": "Georgia Institute of Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCA_022741845.1", "bioproject": "PRJNA747761", "biosample": "SAMN20301313", "wgs_master": "JAIINK000000000.1", "refseq_category": "na", "taxid": "165179", "species_taxid": "165179", "organism_name": "Prevotella copri", "infraspecific_name": "", "isolate": "Map_146_014", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/03/28", "asm_name": "ASM2274184v1", "submitter": "Georgia Institute of Technology", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/022/741/845/GCA_022741845.1_ASM2274184v1", "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": "2022-03-28", "dateModified": "2022-03-28", "datePublished": "2022-03-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Prevotella copri" ], "sample_taxid": [ "165179" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Mozambique" ], "sample_host_location_id": [], "data_size": "0.818 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 49.29, "contamination": 4.17, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2836719", "Number of Sequences": "728", "Longest Sequences (bp)": "33850", "N50 (bp)": "5628", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "45.5", "Number of CDSs": "1669", "Average Protein Length": "347.2", "Coding Ratio (%)": "61.3", "Number of rRNAs": "0", "Number of tRNAs": "51", "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": 95.8159, "matched_fragments": 423, "total_fragments": 564, "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": 95.6304, "matched_fragments": 431, "total_fragments": 564, "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": 95.629, "matched_fragments": 432, "total_fragments": 564, "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": 81.105, "matched_fragments": 278, "total_fragments": 564, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella fusca", "strain": "strain=W1435", "accession": "GCA_001262015.1", "taxid": 589436, "species_taxid": 589436, "relation_to_type": "type", "validated": true, "ani": 77.177, "matched_fragments": 55, "total_fragments": 564, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella fusca", "strain": "strain=W1435", "accession": "GCA_018128145.1", "taxid": 589436, "species_taxid": 589436, "relation_to_type": "type", "validated": true, "ani": 77.1404, "matched_fragments": 55, "total_fragments": 564, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella albensis", "strain": "strain=JCM 12258", "accession": "GCA_000613525.1", "taxid": 77768, "species_taxid": 77768, "relation_to_type": "type", "validated": true, "ani": 76.7005, "matched_fragments": 64, "total_fragments": 564, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 49.29, "contamination": 4.17, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_900557255.1", "gtdb_species": "s__Prevotella sp900557255", "ani": 96.1712, "matched_fragments": 301, "total_fragments": 564, "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_015074785.1", "gtdb_species": "s__Prevotella sp015074785", "ani": 96.1078, "matched_fragments": 481, "total_fragments": 564, "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": 95.629, "matched_fragments": 432, "total_fragments": 564, "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": "-" }, { "accession": "GCF_019127135.1", "gtdb_species": "s__Prevotella sp900551275", "ani": 94.7945, "matched_fragments": 450, "total_fragments": 564, "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": "-" }, { "accession": "GCF_009494395.1", "gtdb_species": "s__Prevotella sp900546535", "ani": 84.3481, "matched_fragments": 384, "total_fragments": 564, "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_019249655.1", "gtdb_species": "s__Prevotella sp900767615", "ani": 84.1431, "matched_fragments": 386, "total_fragments": 564, "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": 83.9369, "matched_fragments": 361, "total_fragments": 564, "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_900544825.1", "gtdb_species": "s__Prevotella sp900544825", "ani": 83.656, "matched_fragments": 330, "total_fragments": 564, "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_900551985.1", "gtdb_species": "s__Prevotella sp900551985", "ani": 83.1118, "matched_fragments": 340, "total_fragments": 564, "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": 82.7582, "matched_fragments": 278, "total_fragments": 564, "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": "-" }, { "accession": "GCA_900765465.1", "gtdb_species": "s__Prevotella sp900765465", "ani": 82.5545, "matched_fragments": 216, "total_fragments": 564, "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": "-" } ] }, "_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 sp934191715" ], "_genome_taxon": [ "Prevotella", "copri", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Bacteroidaceae", "g__Prevotella", "s__Prevotella sp934191715", "Bacteria", "Bacteroidota", "Bacteroidia", "Bacteroidales", "Bacteroidaceae", "Prevotella", "Prevotella", "sp934191715" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }