{ "type": "genome", "identifier": "GCF_000421205.1", "organism": "Prevotella denticola DSM 20614 = JCM 13449", "title": "Prevotella denticola DSM 20614 = JCM 13449", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000421205.1", "bioproject": "PRJNA224116", "biosample": "SAMN02440901", "wgs_master": "ATWK00000000.1", "refseq_category": "na", "taxid": "1122982", "species_taxid": "28129", "organism_name": "Prevotella denticola DSM 20614 = JCM 13449", "infraspecific_name": "strain=DSM 20614", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/07/09", "asm_name": "ASM42120v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000421205.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/421/205/GCF_000421205.1_ASM42120v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3056806", "genome_size_ungapped": "3056796", "gc_percent": "50.000000", "replicon_count": "0", "scaffold_count": "57", "contig_count": "57", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000421205.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "2474", "protein_coding_gene_count": "2364", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-07-09", "dateModified": "2013-07-09", "datePublished": "2013-07-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Prevotella denticola DSM 20614 = JCM 13449" ], "sample_taxid": [ "1122982" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.875 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)": "3056806", "Number of Sequences": "57", "Longest Sequences (bp)": "219377", "N50 (bp)": "125220", "Gap Ratio (%)": "0.000327", "GCcontent (%)": "50.1", "Number of CDSs": "2348", "Average Protein Length": "357.6", "Coding Ratio (%)": "82.4", "Number of rRNAs": "3", "Number of tRNAs": "47", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Prevotella denticola", "strain": "strain=DSM 20614", "accession": "GCA_000421205.1", "taxid": 28129, "species_taxid": 28129, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 985, "total_fragments": 988, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Prevotella denticola", "strain": "strain=NCTC13067", "accession": "GCA_900454835.1", "taxid": 28129, "species_taxid": 28129, "relation_to_type": "type", "validated": true, "ani": 99.995, "matched_fragments": 985, "total_fragments": 988, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Prevotella multiformis", "strain": "strain=DSM 16608", "accession": "GCA_000191065.1", "taxid": 282402, "species_taxid": 282402, "relation_to_type": "type", "validated": true, "ani": 89.6764, "matched_fragments": 721, "total_fragments": 988, "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": 81.0408, "matched_fragments": 526, "total_fragments": 988, "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": 81.0163, "matched_fragments": 525, "total_fragments": 988, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella fusca", "strain": "strain=JCM 17724", "accession": "GCA_000614245.1", "taxid": 589436, "species_taxid": 589436, "relation_to_type": "type", "validated": true, "ani": 80.9566, "matched_fragments": 521, "total_fragments": 988, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Palleniella intestinalis", "strain": "strain=PINT", "accession": "GCA_013166595.1", "taxid": 2736291, "species_taxid": 2736291, "relation_to_type": "type", "validated": true, "ani": 76.9591, "matched_fragments": 50, "total_fragments": 988, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hallella faecis", "strain": "strain=CLA-AA-H145", "accession": "GCA_018789675.1", "taxid": 2841596, "species_taxid": 2841596, "relation_to_type": "type", "validated": true, "ani": 76.8013, "matched_fragments": 110, "total_fragments": 988, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prevotella mizrahii", "strain": "strain=LKV-178-WT-2A", "accession": "GCA_009695775.1", "taxid": 2606637, "species_taxid": 2606637, "relation_to_type": "type", "validated": true, "ani": 76.6915, "matched_fragments": 104, "total_fragments": 988, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900454835.1", "gtdb_species": "s__Prevotella denticola", "ani": 99.995, "matched_fragments": 985, "total_fragments": 988, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.27", "min_intra_species_ani": "97.69", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 14, "status": "conclusive" }, { "accession": "GCF_000191065.1", "gtdb_species": "s__Prevotella multiformis", "ani": 89.6688, "matched_fragments": 722, "total_fragments": 988, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.87", "min_intra_species_ani": "97.87", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001262015.1", "gtdb_species": "s__Prevotella fusca", "ani": 81.0287, "matched_fragments": 526, "total_fragments": 988, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.97", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000377625.1", "gtdb_species": "s__Prevotella veroralis", "ani": 80.8171, "matched_fragments": 253, "total_fragments": 988, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.76", "min_intra_species_ani": "96.65", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_018128065.1", "gtdb_species": "s__Prevotella sp000467895", "ani": 80.3717, "matched_fragments": 378, "total_fragments": 988, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.71", "min_intra_species_ani": "96.42", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.83", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000144405.1", "gtdb_species": "s__Prevotella melaninogenica", "ani": 79.738, "matched_fragments": 330, "total_fragments": 988, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Prevotella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.46", "min_intra_species_ani": "95.36", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.78", "num_clustered_genomes": 36, "status": "-" }, { "accession": "GCF_018127965.1", "gtdb_species": "s__Prevotella melaninogenica_B", "ani": 79.7352, "matched_fragments": 311, "total_fragments": 988, "gtdb_taxonomy": 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