{ "type": "genome", "identifier": "GCA_019119455.1", "organism": "Candidatus Alistipes stercoripullorum", "title": "Candidatus Alistipes stercoripullorum", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Quadram Institutte", "publication": [ {} ], "properties": { "assembly_accession": "GCA_019119455.1", "bioproject": "PRJNA543206", "biosample": "SAMN15816818", "wgs_master": "DWXA00000000.1", "refseq_category": "na", "taxid": "2838449", "species_taxid": "2838449", "organism_name": "Candidatus Alistipes stercoripullorum", "infraspecific_name": "", "isolate": "ChiBcec8-6454", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/07/05", "asm_name": "ASM1911945v1", "submitter": "Quadram Institutte", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/019/119/455/GCA_019119455.1_ASM1911945v1", "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": "2021-07-05", "dateModified": "2021-07-05", "datePublished": "2021-07-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Candidatus Alistipes stercoripullorum" ], "sample_taxid": [ "2838449" ], "sample_host_organism": [ "Gallus gallus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "0.624 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)": "2237167", "Number of Sequences": "40", "Longest Sequences (bp)": "216370", "N50 (bp)": "107508", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.9", "Number of CDSs": "1797", "Average Protein Length": "365.5", "Coding Ratio (%)": "88.1", "Number of rRNAs": "0", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Alistipes dispar", "strain": "strain=5CPEGH6", "accession": "GCA_006542685.1", "taxid": 2585119, "species_taxid": 2585119, "relation_to_type": "type", "validated": true, "ani": 99.0186, "matched_fragments": 714, "total_fragments": 727, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Alistipes shahii", "strain": "strain=WAL 8301", "accession": "GCA_000210575.1", "taxid": 328814, "species_taxid": 328814, "relation_to_type": "suspected-type", "validated": true, "ani": 83.7792, "matched_fragments": 489, "total_fragments": 727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes senegalensis", "strain": "strain=JC50", "accession": "GCA_000312145.1", "taxid": 1288121, "species_taxid": 1288121, "relation_to_type": "type", "validated": true, "ani": 83.7375, "matched_fragments": 500, "total_fragments": 727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes senegalensis", "strain": "strain=FDAARGOS_1578", "accession": "GCA_020735725.1", "taxid": 1288121, "species_taxid": 1288121, "relation_to_type": "type", "validated": true, "ani": 83.7297, "matched_fragments": 492, "total_fragments": 727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes shahii", "strain": "strain=WAL 8301", "accession": "GCA_025145845.1", "taxid": 328814, "species_taxid": 328814, "relation_to_type": "suspected-type", "validated": true, "ani": 83.7271, "matched_fragments": 482, "total_fragments": 727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes senegalensis", "strain": "strain=JC50", "accession": "GCA_025145645.1", "taxid": 1288121, "species_taxid": 1288121, "relation_to_type": "type", "validated": true, "ani": 83.7103, "matched_fragments": 495, "total_fragments": 727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes provencensis", "strain": "strain=Marseille-P2431", "accession": "GCA_900083545.1", "taxid": 1816676, "species_taxid": 1816676, "relation_to_type": "type", "validated": true, "ani": 83.3303, "matched_fragments": 488, "total_fragments": 727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes montrealensis", "strain": "strain=kh20", "accession": "GCA_018362775.1", "taxid": 2834113, "species_taxid": 2834113, "relation_to_type": "type", "validated": true, "ani": 82.0708, "matched_fragments": 471, "total_fragments": 727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes onderdonkii", "strain": "strain=DSM 19147", "accession": "GCA_025145285.1", "taxid": 328813, "species_taxid": 328813, "relation_to_type": "type", "validated": true, "ani": 81.9497, "matched_fragments": 479, "total_fragments": 727, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Alistipes indistinctus", "strain": "strain=YIT 12060", "accession": "GCA_025144995.1", "taxid": 626932, "species_taxid": 626932, "relation_to_type": "type", "validated": true, "ani": 76.8757, "matched_fragments": 90, "total_fragments": 727, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_006542685.1", "gtdb_species": "s__Alistipes dispar", "ani": 99.0186, "matched_fragments": 714, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.07", "min_intra_species_ani": "98.96", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.89", "num_clustered_genomes": 7, "status": "conclusive" }, { "accession": "GCA_019115605.1", "gtdb_species": "s__Alistipes faecigallinarum", "ani": 84.8326, "matched_fragments": 475, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "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": "GCA_019119615.1", "gtdb_species": "s__Alistipes stercoravium", "ani": 84.6269, "matched_fragments": 508, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.09", "min_intra_species_ani": "99.09", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_000434235.1", "gtdb_species": "s__Alistipes avistercoris", "ani": 84.1821, "matched_fragments": 472, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.12", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.84", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_000210575.1", "gtdb_species": "s__Alistipes shahii", "ani": 83.8312, "matched_fragments": 486, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.59", "min_intra_species_ani": "98.01", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.77", "num_clustered_genomes": 20, "status": "-" }, { "accession": "GCA_900544265.1", "gtdb_species": "s__Alistipes merdavium", "ani": 83.7953, "matched_fragments": 422, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.60", "min_intra_species_ani": "98.07", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.88", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_900541585.1", "gtdb_species": "s__Alistipes sp900541585", "ani": 83.7938, "matched_fragments": 451, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.76", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000312145.1", "gtdb_species": "s__Alistipes senegalensis", "ani": 83.7321, "matched_fragments": 500, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.29", "min_intra_species_ani": "97.35", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.66", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCA_001941065.1", "gtdb_species": "s__Alistipes sp001941065", "ani": 83.0358, "matched_fragments": 443, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "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": "GCA_910576555.1", "gtdb_species": "s__Alistipes sp910576555", "ani": 82.8895, "matched_fragments": 409, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "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_002161445.1", "gtdb_species": "s__Alistipes cottocaccae", "ani": 82.4147, "matched_fragments": 444, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.26", "min_intra_species_ani": "98.26", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_019118605.1", "gtdb_species": "s__Alistipes faecavium", "ani": 82.3323, "matched_fragments": 422, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "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_000374505.1", "gtdb_species": "s__Alistipes onderdonkii", "ani": 81.805, "matched_fragments": 497, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.63", "min_intra_species_ani": "96.86", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.82", "num_clustered_genomes": 44, "status": "-" }, { "accession": "GCF_900021155.1", "gtdb_species": "s__Alistipes excrementavium", "ani": 81.4431, "matched_fragments": 372, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Rikenellaceae;g__Alistipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.37", "min_intra_species_ani": "98.83", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCA_017651225.1", "gtdb_species": "s__Cryptobacteroides sp017651225", "ani": 76.0946, "matched_fragments": 56, "total_fragments": 727, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__UBA932;g__Cryptobacteroides", "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": -0.6, "cell_length": -0.098, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": 7.0, "genome_size": 3170459.528, "gc_content": 56.414, "coding_genes": 2833.0, "rRNA16S_genes": 2.0, "tRNA_genes": 48.0, "gram_stain": 0.166, "sporulation": 0.0, "motility": 0.166, "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": 0.833, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.166, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Rikenellaceae", "g__Alistipes", "s__Alistipes dispar" ], "_genome_taxon": [ "Candidatus", "Alistipes", "stercoripullorum", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Rikenellaceae", "g__Alistipes", "s__Alistipes dispar", "Bacteria", "Bacteroidota", "Bacteroidia", "Bacteroidales", "Rikenellaceae", "Alistipes", "Alistipes", "dispar" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }