{ "type": "genome", "identifier": "GCF_014288125.1", "organism": "Pseudoflavonifractor hominis", "title": "Pseudoflavonifractor hominis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MRCEN World Data Centre for Microoganisms(WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014288125.1", "bioproject": "PRJNA224116", "biosample": "SAMN15808717", "wgs_master": "JACOPR000000000.1", "refseq_category": "reference genome", "taxid": "2763059", "species_taxid": "2763059", "organism_name": "Pseudoflavonifractor hominis", "infraspecific_name": "strain=New-38", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/24", "asm_name": "ASM1428812v1", "asm_submitter": "WFCC-MRCEN World Data Centre for Microoganisms(WDCM)", "gbrs_paired_asm": "GCA_014288125.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/288/125/GCF_014288125.1_ASM1428812v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3057742", "genome_size_ungapped": "3057742", "gc_percent": "60.000000", "replicon_count": "0", "scaffold_count": "33", "contig_count": "33", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014288125.1-RS_2024_07_15", "annotation_date": "2024-07-15", "total_gene_count": "3017", "protein_coding_gene_count": "2919", "non_coding_gene_count": "69", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-24", "dateModified": "2020-08-24", "datePublished": "2020-08-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudoflavonifractor hominis" ], "sample_taxid": [ "2763059" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China:Beijing" ], "sample_host_location_id": [], "data_size": "0.856 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)": "3057742", "Number of Sequences": "33", "Longest Sequences (bp)": "555688", "N50 (bp)": "501140", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.1", "Number of CDSs": "2929", "Average Protein Length": "309.0", "Coding Ratio (%)": "88.8", "Number of rRNAs": "6", "Number of tRNAs": "62", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudoflavonifractor gallinarum", "strain": "strain=DSM 107456", "accession": "GCA_014982855.1", "taxid": 2779352, "species_taxid": 2779352, "relation_to_type": "type", "validated": true, "ani": 98.3739, "matched_fragments": 874, "total_fragments": 1004, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Flavonifractor plautii", "strain": "strain=JCM 32125", "accession": "GCA_010508875.1", "taxid": 292800, "species_taxid": 292800, "relation_to_type": "suspected-type", "validated": true, "ani": 81.9735, "matched_fragments": 450, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavonifractor plautii", "strain": "strain=ATCC 29863", "accession": "GCA_000239295.1", "taxid": 292800, "species_taxid": 292800, "relation_to_type": "suspected-type", "validated": true, "ani": 81.8969, "matched_fragments": 420, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium phoceensis", "strain": "strain=GD3", "accession": "GCA_001244495.1", "taxid": 1650661, "species_taxid": 1650661, "relation_to_type": "type", "validated": true, "ani": 79.5094, "matched_fragments": 290, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Intestinimonas butyriciproducens", "strain": "strain=DSM 26588", "accession": "GCA_024622565.1", "taxid": 1297617, "species_taxid": 1297617, "relation_to_type": "type", "validated": true, "ani": 79.0071, "matched_fragments": 263, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Intestinimonas butyriciproducens", "strain": "strain=DSM 26588", "accession": "GCA_003096335.1", "taxid": 1297617, "species_taxid": 1297617, "relation_to_type": "type", "validated": true, "ani": 78.8389, "matched_fragments": 271, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dysosmobacter welbionis", "strain": "strain=J115", "accession": "GCA_005121165.3", "taxid": 2093857, "species_taxid": 2093857, "relation_to_type": "type", "validated": true, "ani": 78.5518, "matched_fragments": 220, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Faecalibacterium gallinarum", "strain": "strain=JCM 17207", "accession": "GCA_022180365.1", "taxid": 2903556, "species_taxid": 2903556, "relation_to_type": "type", "validated": true, "ani": 78.323, "matched_fragments": 148, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Evtepia gabavorous", "strain": "strain=KLE1738", "accession": "GCA_003425665.1", "taxid": 2211183, "species_taxid": 2211183, "relation_to_type": "type", "validated": true, "ani": 78.2994, "matched_fragments": 142, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Evtepia gabavorous", "strain": "strain=KLE1738", "accession": "GCA_008121455.1", "taxid": 2211183, "species_taxid": 2211183, "relation_to_type": "type", "validated": true, "ani": 78.2983, "matched_fragments": 142, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dysosmobacter acutus", "strain": "strain=MSJ-2", "accession": "GCA_018919205.1", "taxid": 2841504, "species_taxid": 2841504, "relation_to_type": "type", "validated": true, "ani": 77.8759, "matched_fragments": 167, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Faecalibacterium hattorii", "strain": "strain=APC922/41-1", "accession": "GCA_003287455.1", "taxid": 2935520, "species_taxid": 2935520, "relation_to_type": "type", "validated": true, "ani": 76.4051, "matched_fragments": 79, "total_fragments": 1004, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900199495.1", "gtdb_species": "s__An92 sp900199495", "ani": 98.799, "matched_fragments": 876, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__An92", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.28", "min_intra_species_ani": "97.84", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.79", "num_clustered_genomes": 7, "status": "conclusive" }, { "accession": "GCA_018374635.1", "gtdb_species": "s__An92 sp018374635", "ani": 92.7519, "matched_fragments": 685, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__An92", "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_002159175.1", "gtdb_species": "s__An92 sp002159175", "ani": 83.4311, "matched_fragments": 556, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__An92", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.91", "min_intra_species_ani": "98.91", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018917965.1", "gtdb_species": "s__An92 sp018917965", "ani": 82.3343, "matched_fragments": 475, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__An92", "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_000239295.1", "gtdb_species": "s__Flavonifractor plautii", "ani": 81.8869, "matched_fragments": 420, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__Flavonifractor", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.23", "min_intra_species_ani": "97.77", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.59", "num_clustered_genomes": 43, "status": "-" }, { "accession": "GCA_019118925.1", "gtdb_species": "s__An92 sp019118925", "ani": 81.7189, "matched_fragments": 393, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__An92", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_019115265.1", "gtdb_species": "s__An92 sp019115265", "ani": 81.3795, "matched_fragments": 375, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__An92", "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_904419835.1", "gtdb_species": "s__Pseudoflavonifractor sp904419835", "ani": 80.5443, "matched_fragments": 366, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__Pseudoflavonifractor", "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_002160305.1", "gtdb_species": "s__Lawsonibacter pullicola", "ani": 80.5238, "matched_fragments": 322, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__Lawsonibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.22", "min_intra_species_ani": "97.83", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.75", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_900626145.1", "gtdb_species": "s__Intestinimonas timonensis", "ani": 80.4872, "matched_fragments": 374, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__Intestinimonas", "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_016899775.1", "gtdb_species": "s__Lawsonibacter sp900545895", "ani": 80.1118, "matched_fragments": 321, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__Lawsonibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.62", "min_intra_species_ani": "96.12", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.79", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_008727735.1", "gtdb_species": "s__Lawsonibacter sp000177015", "ani": 80.0542, "matched_fragments": 300, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__Lawsonibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.97", "min_intra_species_ani": "96.84", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.83", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_019115345.1", "gtdb_species": "s__Intestinimonas stercorigallinarum", "ani": 79.9086, "matched_fragments": 260, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__Intestinimonas", "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_019115785.1", "gtdb_species": "s__Intestinimonas merdavium", "ani": 79.2908, "matched_fragments": 294, "total_fragments": 1004, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Oscillospirales;f__Oscillospiraceae;g__Intestinimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.39", "min_intra_species_ani": "98.39", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.155, "cell_length": 0.204, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": null, "genome_size": 4241464.5, "gc_content": 59.115, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "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 }, "_genome_taxon": [ "Pseudoflavonifractor", "hominis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }