{ "type": "genome", "identifier": "GCF_025567345.1", "organism": "Coprococcus ammoniilyticus", "title": "Coprococcus ammoniilyticus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "UniKlinik RWTH Aachen", "publication": [ {} ], "properties": { "assembly_accession": "GCF_025567345.1", "bioproject": "PRJNA224116", "biosample": "SAMN30962684", "wgs_master": "JAOQJS000000000.1", "refseq_category": "reference genome", "taxid": "2981785", "species_taxid": "2981785", "organism_name": "Coprococcus ammoniilyticus", "infraspecific_name": "strain=H1_22", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/10/04", "asm_name": "ASM2556734v1", "asm_submitter": "UniKlinik RWTH Aachen", "gbrs_paired_asm": "GCA_025567345.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/025/567/345/GCF_025567345.1_ASM2556734v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2912566", "genome_size_ungapped": "2912038", "gc_percent": "41.000000", "replicon_count": "0", "scaffold_count": "10", "contig_count": "10", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-02-29", "total_gene_count": "2583", "protein_coding_gene_count": "2501", "non_coding_gene_count": "56", "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": [ "Coprococcus ammoniilyticus" ], "sample_taxid": [ "2981785" ], "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": "0.816 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)": "2912566", "Number of Sequences": "10", "Longest Sequences (bp)": "596231", "N50 (bp)": "425215", "Gap Ratio (%)": "0.018163", "GCcontent (%)": "41.0", "Number of CDSs": "2561", "Average Protein Length": "333.6", "Coding Ratio (%)": "88.0", "Number of rRNAs": "2", "Number of tRNAs": "49", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Coprococcus eutactus", "strain": "strain=ATCC 27759", "accession": "GCA_000154425.1", "taxid": 33043, "species_taxid": 33043, "relation_to_type": "suspected-type", "validated": true, "ani": 80.3327, "matched_fragments": 179, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Coprococcus eutactus", "strain": "strain=ATCC 27759", "accession": "GCA_025149915.1", "taxid": 33043, "species_taxid": 33043, "relation_to_type": "suspected-type", "validated": true, "ani": 80.3196, "matched_fragments": 180, "total_fragments": 966, "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": 79.8042, "matched_fragments": 145, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dorea formicigenerans", "strain": "strain=ATCC 27755", "accession": "GCA_000169235.1", "taxid": 39486, "species_taxid": 39486, "relation_to_type": "suspected-type", "validated": true, "ani": 79.5323, "matched_fragments": 65, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dorea formicigenerans", "strain": "strain=ATCC 27755", "accession": "GCA_025150245.1", "taxid": 39486, "species_taxid": 39486, "relation_to_type": "suspected-type", "validated": true, "ani": 79.5001, "matched_fragments": 67, "total_fragments": 966, "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": 79.2134, "matched_fragments": 67, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Coprococcus catus", "strain": "strain=ATCC 27761", "accession": "GCA_025289135.1", "taxid": 116085, "species_taxid": 116085, "relation_to_type": "suspected-type", "validated": true, "ani": 78.9423, "matched_fragments": 67, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dorea longicatena", "strain": "strain=DSM 13814", "accession": "GCA_025150085.1", "taxid": 88431, "species_taxid": 88431, "relation_to_type": "type", "validated": true, "ani": 78.7559, "matched_fragments": 90, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseburia intestinalis", "strain": "strain=L1-82", "accession": "GCA_000156535.1", "taxid": 166486, "species_taxid": 166486, "relation_to_type": "type", "validated": true, "ani": 78.6984, "matched_fragments": 79, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dorea longicatena", "strain": "strain=DSM 13814", "accession": "GCA_000154065.1", "taxid": 88431, "species_taxid": 88431, "relation_to_type": "type", "validated": true, "ani": 78.4981, "matched_fragments": 87, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Jutongia hominis", "strain": "strain=BX3", "accession": "GCA_014384965.1", "taxid": 2763664, "species_taxid": 2763664, "relation_to_type": "type", "validated": true, "ani": 78.4236, "matched_fragments": 69, "total_fragments": 966, "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": 78.293, "matched_fragments": 63, "total_fragments": 966, "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": 77.4217, "matched_fragments": 60, "total_fragments": 966, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003461625.1", "gtdb_species": "s__Coprococcus sp900066115", "ani": 98.7392, "matched_fragments": 821, "total_fragments": 966, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Coprococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.16", "min_intra_species_ani": "97.77", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 23, "status": "conclusive" }, { "accession": "GCF_000154245.1", "gtdb_species": "s__Coprococcus sp000154245", "ani": 94.3673, "matched_fragments": 745, "total_fragments": 966, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Coprococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.94", "min_intra_species_ani": "98.58", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_002437435.1", "gtdb_species": "s__Coprococcus sp002437435", "ani": 90.0739, "matched_fragments": 665, "total_fragments": 966, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Coprococcus", "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_000154425.1", "gtdb_species": "s__Coprococcus eutactus", "ani": 80.3007, "matched_fragments": 180, "total_fragments": 966, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Coprococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.55", "min_intra_species_ani": "98.02", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.86", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_003482105.1", "gtdb_species": "s__Coprococcus sp000433075", "ani": 80.1315, "matched_fragments": 206, "total_fragments": 966, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Coprococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.05", "min_intra_species_ani": "98.02", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_900761435.1", "gtdb_species": "s__Coprococcus sp900761435", "ani": 79.5816, "matched_fragments": 308, "total_fragments": 966, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Coprococcus", "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_900548215.1", "gtdb_species": "s__Coprococcus sp900548215", "ani": 78.6238, "matched_fragments": 137, "total_fragments": 966, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Coprococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.00", "min_intra_species_ani": "97.92", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_900557435.1", "gtdb_species": "s__Coprococcus sp900557435", "ani": 78.2785, "matched_fragments": 89, "total_fragments": 966, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Coprococcus", "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_017935345.1", "gtdb_species": "s__Coprococcus sp017935345", "ani": 77.9787, "matched_fragments": 176, "total_fragments": 966, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Coprococcus", "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_016296785.1", "gtdb_species": "s__Coprococcus sp016296785", "ani": 77.7875, "matched_fragments": 136, "total_fragments": 966, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Coprococcus", "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": -0.117, "cell_length": 0.204, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": 5.775, "genome_size": 3287902.0, "gc_content": 42.676, "coding_genes": 2985.0, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "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": [ "Coprococcus", "ammoniilyticus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }