{ "type": "genome", "identifier": "GCF_025567365.1", "organism": "Anaerostipes amylophilus", "title": "Anaerostipes amylophilus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "UniKlinik RWTH Aachen", "publication": [ {} ], "properties": { "assembly_accession": "GCF_025567365.1", "bioproject": "PRJNA224116", "biosample": "SAMN30962672", "wgs_master": "JAOQJG000000000.1", "refseq_category": "reference genome", "taxid": "2981779", "species_taxid": "2981779", "organism_name": "Anaerostipes amylophilus", "infraspecific_name": "strain=H1_26", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/10/04", "asm_name": "ASM2556736v1", "asm_submitter": "UniKlinik RWTH Aachen", "gbrs_paired_asm": "GCA_025567365.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/025/567/365/GCF_025567365.1_ASM2556736v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2459729", "genome_size_ungapped": "2458428", "gc_percent": "36.500000", "replicon_count": "0", "scaffold_count": "20", "contig_count": "20", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-02-29", "total_gene_count": "2440", "protein_coding_gene_count": "2314", "non_coding_gene_count": "75", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-10-04", "dateModified": "2022-10-04", "datePublished": "2022-10-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Anaerostipes amylophilus" ], "sample_taxid": [ "2981779" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom" ], "sample_host_location_id": [], "data_size": "0.682 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)": "2459729", "Number of Sequences": "20", "Longest Sequences (bp)": "500760", "N50 (bp)": "391873", "Gap Ratio (%)": "0.053055", "GCcontent (%)": "36.7", "Number of CDSs": "2368", "Average Protein Length": "306.8", "Coding Ratio (%)": "88.6", "Number of rRNAs": "2", "Number of tRNAs": "61", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Anaerostipes hadrus", "strain": "strain=DSM 3319", "accession": "GCA_000332875.2", "taxid": 649756, "species_taxid": 649756, "relation_to_type": "type", "validated": true, "ani": 88.8419, "matched_fragments": 614, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Coprococcus comes", "strain": "strain=ATCC 27758", "accession": "GCA_025149785.1", "taxid": 410072, "species_taxid": 410072, "relation_to_type": "type", "validated": true, "ani": 79.4501, "matched_fragments": 95, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerostipes faecalis", "strain": "strain=AGMB03513", "accession": "GCA_018982945.1", "taxid": 2738446, "species_taxid": 2738446, "relation_to_type": "type", "validated": true, "ani": 79.3802, "matched_fragments": 280, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eubacterium ramulus", "strain": "strain=ATCC 29099", "accession": "GCA_000469345.1", "taxid": 39490, "species_taxid": 39490, "relation_to_type": "type", "validated": true, "ani": 78.6777, "matched_fragments": 67, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerostipes butyraticus", "strain": "strain=JCM 17466", "accession": "GCA_016586355.1", "taxid": 645466, "species_taxid": 645466, "relation_to_type": "type", "validated": true, "ani": 78.4961, "matched_fragments": 211, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerostipes caccae", "strain": "strain=JCM 13470", "accession": "GCA_014467075.1", "taxid": 105841, "species_taxid": 105841, "relation_to_type": "type", "validated": true, "ani": 78.1809, "matched_fragments": 92, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerostipes caccae", "strain": "strain=DSM 14662", "accession": "GCA_000154305.1", "taxid": 105841, "species_taxid": 105841, "relation_to_type": "type", "validated": true, "ani": 78.0981, "matched_fragments": 95, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia wexlerae", "strain": "strain=DSM 19850", "accession": "GCA_025148125.1", "taxid": 418240, "species_taxid": 418240, "relation_to_type": "suspected-type", "validated": true, "ani": 78.0891, "matched_fragments": 91, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerostipes caccae", "strain": "strain=DSM 14662", "accession": "GCA_025146005.1", "taxid": 105841, "species_taxid": 105841, "relation_to_type": "type", "validated": true, "ani": 78.0742, "matched_fragments": 92, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerostipes rhamnosivorans", "strain": "strain=1y2", "accession": "GCA_005280655.1", "taxid": 1229621, "species_taxid": 1229621, "relation_to_type": "type", "validated": true, "ani": 78.0234, "matched_fragments": 92, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia wexlerae", "strain": "strain=DSM 19850", "accession": "GCA_000484655.1", "taxid": 418240, "species_taxid": 418240, "relation_to_type": "suspected-type", "validated": true, "ani": 77.8249, "matched_fragments": 84, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia hansenii", "strain": "strain=DSM 20583", "accession": "GCA_002222595.2", "taxid": 1322, "species_taxid": 1322, "relation_to_type": "type", "validated": true, "ani": 77.8042, "matched_fragments": 57, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerobutyricum hallii", "strain": "strain=DSM 3353", "accession": "GCA_000173975.1", "taxid": 39488, "species_taxid": 39488, "relation_to_type": "type", "validated": true, "ani": 77.7288, "matched_fragments": 88, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Coprococcus phoceensis", "strain": "strain=Marseille-P3062", "accession": "GCA_900104635.1", "taxid": 1870993, "species_taxid": 1870993, "relation_to_type": "type", "validated": true, "ani": 77.5577, "matched_fragments": 61, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] polysaccharolyticum", "strain": "strain=DSM 1801", "accession": "GCA_900111595.1", "taxid": 29364, "species_taxid": 29364, "relation_to_type": "type", "validated": true, "ani": 76.9374, "matched_fragments": 50, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Wujia chipingensis", "strain": "strain=NSJ-4", "accession": "GCA_014337155.1", "taxid": 2763670, "species_taxid": 2763670, "relation_to_type": "type", "validated": true, "ani": 76.6626, "matched_fragments": 56, "total_fragments": 810, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001404655.1", "gtdb_species": "s__Anaerostipes hadrus_A", "ani": 100.0, "matched_fragments": 808, "total_fragments": 810, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerostipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.11", "min_intra_species_ani": "98.66", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 9, "status": "conclusive" }, { "accession": "GCA_902362875.1", "gtdb_species": "s__Anaerostipes sp900066705", "ani": 91.3632, "matched_fragments": 674, "total_fragments": 810, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerostipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.16", "min_intra_species_ani": "98.31", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000332875.2", "gtdb_species": "s__Anaerostipes hadrus", "ani": 88.8419, "matched_fragments": 614, "total_fragments": 810, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerostipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.35", "min_intra_species_ani": "97.09", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.65", "num_clustered_genomes": 78, "status": "-" }, { "accession": "GCA_905215045.1", "gtdb_species": "s__Anaerostipes sp905215045", "ani": 88.6663, "matched_fragments": 422, "total_fragments": 810, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerostipes", "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_018918155.1", "gtdb_species": "s__Anaerostipes sp018918155", "ani": 80.9579, "matched_fragments": 363, "total_fragments": 810, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerostipes", "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_001940315.1", "gtdb_species": "s__Anaerostipes sp001940315", "ani": 79.3186, "matched_fragments": 286, "total_fragments": 810, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerostipes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.20", "min_intra_species_ani": "99.20", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900756035.1", "gtdb_species": "s__Anaerostipes sp900756035", "ani": 78.9044, "matched_fragments": 247, "total_fragments": 810, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerostipes", "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_019119895.1", "gtdb_species": "s__Anaerostipes avistercoris", "ani": 78.6334, "matched_fragments": 202, "total_fragments": 810, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerostipes", "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": 0.181, "cell_length": 0.5, "doubling_h": null, "growth_tmp": 37.75, "optimum_tmp": 39.5, "optimum_ph": 5.75, "genome_size": 3351944.437, "gc_content": 40.613, "coding_genes": 2835.5, "rRNA16S_genes": 9.0, "tRNA_genes": 70.0, "gram_stain": 1.0, "sporulation": 0.333, "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": [ "Anaerostipes", "amylophilus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }