{ "type": "genome", "identifier": "GCA_018884025.1", "organism": "Candidatus Phocaeicola faecipullorum", "title": "Candidatus Phocaeicola faecipullorum", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Quadram Institutte", "publication": [ {} ], "properties": { "assembly_accession": "GCA_018884025.1", "bioproject": "PRJNA543206", "biosample": "SAMN15816682", "wgs_master": "JAHLFB000000000.1", "refseq_category": "na", "taxid": "2838733", "species_taxid": "2838733", "organism_name": "Candidatus Phocaeicola faecipullorum", "infraspecific_name": "", "isolate": "17637", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/06/14", "asm_name": "ASM1888402v1", "submitter": "Quadram Institutte", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/018/884/025/GCA_018884025.1_ASM1888402v1", "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": "2021-06-14", "dateModified": "2021-06-14", "datePublished": "2021-06-14", "_annotation": { "sample_count": 1, "sample_organism": [ "Candidatus Phocaeicola faecipullorum" ], "sample_taxid": [ "2838733" ], "sample_host_organism": [ "Gallus gallus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom: University of Surrey, Guildford" ], "sample_host_location_id": [], "data_size": "1.098 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 75.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3823218", "Number of Sequences": "289", "Longest Sequences (bp)": "71626", "N50 (bp)": "21859", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.3", "Number of CDSs": "2973", "Average Protein Length": "354.7", "Coding Ratio (%)": "82.7", "Number of rRNAs": "2", "Number of tRNAs": "50", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Phocaeicola plebeius", "strain": "strain=DSM 17135", "accession": "GCA_000187895.1", "taxid": 310297, "species_taxid": 310297, "relation_to_type": "suspected-type", "validated": true, "ani": 79.2271, "matched_fragments": 222, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola faecicola", "strain": "strain=AGMB03916", "accession": "GCA_013618865.1", "taxid": 2739389, "species_taxid": 2739389, "relation_to_type": "type", "validated": true, "ani": 79.0168, "matched_fragments": 176, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola coprocola", "strain": "strain=DSM 17136", "accession": "GCA_000154845.1", "taxid": 310298, "species_taxid": 310298, "relation_to_type": "suspected-type", "validated": true, "ani": 78.6198, "matched_fragments": 218, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola barnesiae", "strain": "strain=JCM 13652", "accession": "GCA_000613645.1", "taxid": 376804, "species_taxid": 376804, "relation_to_type": "type", "validated": true, "ani": 78.5225, "matched_fragments": 180, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola barnesiae", "strain": "strain=DSM 18169", "accession": "GCA_000374585.1", "taxid": 376804, "species_taxid": 376804, "relation_to_type": "type", "validated": true, "ani": 78.4554, "matched_fragments": 177, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola coprophilus", "strain": "strain=JCM 13818", "accession": "GCA_001315785.1", "taxid": 387090, "species_taxid": 387090, "relation_to_type": "type", "validated": true, "ani": 78.421, "matched_fragments": 174, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola coprophilus", "strain": "strain=DSM 18228", "accession": "GCA_000157915.1", "taxid": 387090, "species_taxid": 387090, "relation_to_type": "type", "validated": true, "ani": 78.3901, "matched_fragments": 178, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola sartorii", "strain": "strain=DSM 21941", "accession": "GCA_024622025.1", "taxid": 671267, "species_taxid": 671267, "relation_to_type": "type", "validated": true, "ani": 77.7847, "matched_fragments": 117, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phocaeicola sartorii", "strain": "strain=JCM 17136", "accession": "GCA_000614185.1", "taxid": 671267, "species_taxid": 671267, "relation_to_type": "type", "validated": true, "ani": 77.7436, "matched_fragments": 115, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides faecis", "strain": "strain=MAJ27", "accession": "GCA_900106755.1", "taxid": 674529, "species_taxid": 674529, "relation_to_type": "type", "validated": true, "ani": 76.7414, "matched_fragments": 96, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides rodentium", "strain": "strain=JCM 16496", "accession": "GCA_000614125.1", "taxid": 691816, "species_taxid": 691816, "relation_to_type": "type", "validated": true, "ani": 76.5783, "matched_fragments": 66, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides uniformis", "strain": "strain=ATCC 8492", "accession": "GCA_000154205.1", "taxid": 820, "species_taxid": 820, "relation_to_type": "type", "validated": true, "ani": 76.5011, "matched_fragments": 72, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bacteroides uniformis", "strain": "strain=FDAARGOS_901", "accession": "GCA_016117815.1", "taxid": 820, "species_taxid": 820, "relation_to_type": "type", "validated": true, "ani": 76.4693, "matched_fragments": 73, "total_fragments": 1132, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 75.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_018884025.1", "gtdb_species": "s__Phocaeicola faecipullorum_A", "ani": 100.0, "matched_fragments": 1120, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.13", "min_intra_species_ani": "97.13", "mean_intra_species_af": "0.68", "min_intra_species_af": "0.68", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_900544075.1", "gtdb_species": "s__Phocaeicola sp900544075", "ani": 87.7662, "matched_fragments": 598, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "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_016901995.1", "gtdb_species": "s__Phocaeicola sp900066445", "ani": 86.0321, "matched_fragments": 616, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.12", "min_intra_species_ani": "97.12", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.79", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_018883555.1", "gtdb_species": "s__Phocaeicola faecigallinarum", "ani": 84.73, "matched_fragments": 533, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "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_016902295.1", "gtdb_species": "s__Phocaeicola caecigallinarum_A", "ani": 83.9682, "matched_fragments": 547, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.48", "min_intra_species_ani": "97.48", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.83", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900542985.1", "gtdb_species": "s__Phocaeicola sp900542985", "ani": 78.3459, "matched_fragments": 159, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.63", "min_intra_species_ani": "98.57", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.72", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_016900015.1", "gtdb_species": "s__Phocaeicola_A sp003489705", "ani": 77.0255, "matched_fragments": 52, "total_fragments": 1132, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Bacteroidales;f__Bacteroidaceae;g__Phocaeicola_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.99", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.523, "cell_length": -0.523, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": null, "genome_size": 2530631.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "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__Phocaeicola", "s__Phocaeicola faecipullorum" ], "_genome_taxon": [ "Candidatus", "Phocaeicola", "faecipullorum", "d__Bacteria", "p__Bacteroidota", "c__Bacteroidia", "o__Bacteroidales", "f__Bacteroidaceae", "g__Phocaeicola", "s__Phocaeicola faecipullorum", "Bacteria", "Bacteroidota", "Bacteroidia", "Bacteroidales", "Bacteroidaceae", "Phocaeicola", "Phocaeicola", "faecipullorum" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }