{ "type": "genome", "identifier": "GCA_938045385.1", "organism": "uncultured Clostridium sp.", "title": "uncultured Clostridium sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "European Bioinformatics Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCA_938045385.1", "bioproject": "PRJEB51075", "biosample": "SAMEA14084054", "wgs_master": "CALINI000000000.1", "refseq_category": "na", "taxid": "59620", "species_taxid": "59620", "organism_name": "uncultured Clostridium sp.", "infraspecific_name": "", "isolate": "ERR260231_bin.45_CONCOCT_v1.1_MAG", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/01/10", "asm_name": "ERR260231_bin.45_CONCOCT_v1.1_MAG", "submitter": "European Bioinformatics Institute", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/938/045/385/GCA_938045385.1_ERR260231_bin.45_CONCOCT_v1.1_MAG", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-01-10", "dateModified": "2023-01-10", "datePublished": "2023-01-10", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Clostridium sp." ], "sample_taxid": [ "59620" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not provided" ], "sample_host_location_id": [], "data_size": "0.752 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": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2670532", "Number of Sequences": "21", "Longest Sequences (bp)": "424138", "N50 (bp)": "237528", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "41.3", "Number of CDSs": "2320", "Average Protein Length": "337.5", "Coding Ratio (%)": "88.0", "Number of rRNAs": "0", "Number of tRNAs": "39", "Number of CRISPRs": "0" }, "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": 79.8009, "matched_fragments": 161, "total_fragments": 878, "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": 79.6418, "matched_fragments": 162, "total_fragments": 878, "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": 79.3247, "matched_fragments": 134, "total_fragments": 878, "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": 78.0685, "matched_fragments": 82, "total_fragments": 878, "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": 77.9569, "matched_fragments": 83, "total_fragments": 878, "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": 77.8176, "matched_fragments": 69, "total_fragments": 878, "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": 77.7684, "matched_fragments": 60, "total_fragments": 878, "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": 77.7475, "matched_fragments": 62, "total_fragments": 878, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Blautia massiliensis", "strain": "strain=GD9", "accession": "GCA_001487165.1", "taxid": 1737424, "species_taxid": 1737424, "relation_to_type": "type", "validated": true, "ani": 77.3933, "matched_fragments": 65, "total_fragments": 878, "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": 77.3348, "matched_fragments": 65, "total_fragments": 878, "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": 77.0721, "matched_fragments": 51, "total_fragments": 878, "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": 98.5299, "matched_fragments": 798, "total_fragments": 878, "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": 94.3465, "matched_fragments": 724, "total_fragments": 878, "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": 90.0056, "matched_fragments": 649, "total_fragments": 878, "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": 79.8009, "matched_fragments": 161, "total_fragments": 878, "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": "GCA_900761435.1", "gtdb_species": "s__Coprococcus sp900761435", "ani": 79.5842, "matched_fragments": 308, "total_fragments": 878, "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_003482105.1", "gtdb_species": "s__Coprococcus sp000433075", "ani": 79.3095, "matched_fragments": 177, "total_fragments": 878, "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_900548215.1", "gtdb_species": "s__Coprococcus sp900548215", "ani": 78.9077, "matched_fragments": 125, "total_fragments": 878, "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": 78.8464, "matched_fragments": 91, "total_fragments": 878, "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": 78.2819, "matched_fragments": 168, "total_fragments": 878, "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": 77.9928, "matched_fragments": 129, "total_fragments": 878, "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_002431865.1", "gtdb_species": "s__CAG-127 sp002431865", "ani": 77.8165, "matched_fragments": 95, "total_fragments": 878, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-127", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.73", "min_intra_species_ani": "99.73", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.84", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.16, "cell_length": 0.434, "doubling_h": 0.353, "growth_tmp": 33.457, "optimum_tmp": 35.173, "optimum_ph": 6.947, "genome_size": 4165901.003, "gc_content": 29.49, "coding_genes": 3796.985, "rRNA16S_genes": 9.374, "tRNA_genes": 78.312, "gram_stain": 0.945, "sporulation": 0.967, "motility": 0.92, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 0.944, "thermophilic_range_tmp": 0.055, "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 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__Coprococcus", "s__Coprococcus ammoniilyticus" ], "_genome_taxon": [ "uncultured", "Clostridium", "sp.", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__Coprococcus", "s__Coprococcus ammoniilyticus", "Bacteria", "Bacillota", "A", "Clostridia", "Lachnospirales", "Lachnospiraceae", "Coprococcus", "Coprococcus", "ammoniilyticus" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }