{ "type": "genome", "identifier": "GCA_905207085.1", "organism": "uncultured Clostridium sp.", "title": "uncultured Clostridium sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "EMG", "publication": [ {} ], "properties": { "assembly_accession": "GCA_905207085.1", "bioproject": "PRJEB37358", "biosample": "SAMEA7847086", "wgs_master": "CAJLJW000000000.1", "refseq_category": "na", "taxid": "59620", "species_taxid": "59620", "organism_name": "uncultured Clostridium sp.", "infraspecific_name": "", "isolate": "ERR2013568-bin.4", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/02/04", "asm_name": "ERR2013568-mag-bin.4", "submitter": "EMG", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/905/207/085/GCA_905207085.1_ERR2013568-mag-bin.4", "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": "2021-02-04", "dateModified": "2021-02-04", "datePublished": "2021-02-04", "_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": [ "China" ], "sample_host_location_id": [], "data_size": "0.837 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.55, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2934145", "Number of Sequences": "91", "Longest Sequences (bp)": "165364", "N50 (bp)": "59270", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "49.4", "Number of CDSs": "2711", "Average Protein Length": "316.4", "Coding Ratio (%)": "87.7", "Number of rRNAs": "0", "Number of tRNAs": "32", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Clostridium fessum", "strain": "strain=SNUG30386", "accession": "GCA_003024715.1", "taxid": 2126740, "species_taxid": 2126740, "relation_to_type": "type", "validated": true, "ani": 78.043, "matched_fragments": 153, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hungatella effluvii", "strain": "strain=DSM 24995", "accession": "GCA_003201875.1", "taxid": 1096246, "species_taxid": 1096246, "relation_to_type": "type", "validated": true, "ani": 77.517, "matched_fragments": 100, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterocloster bolteae", "strain": "strain=ATCC BAA-613", "accession": "GCA_002959675.1", "taxid": 208479, "species_taxid": 208479, "relation_to_type": "type", "validated": true, "ani": 77.0444, "matched_fragments": 129, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterocloster bolteae", "strain": "strain=ATCC BAA-613", "accession": "GCA_000154365.1", "taxid": 208479, "species_taxid": 208479, "relation_to_type": "type", "validated": true, "ani": 76.9613, "matched_fragments": 132, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterocloster bolteae", "strain": "strain=ATCC BAA-613", "accession": "GCA_002234575.2", "taxid": 208479, "species_taxid": 208479, "relation_to_type": "type", "validated": true, "ani": 76.9498, "matched_fragments": 129, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hungatella hathewayi", "strain": "strain=DSM 13479", "accession": "GCA_025149285.1", "taxid": 154046, "species_taxid": 154046, "relation_to_type": "suspected-type", "validated": true, "ani": 76.9157, "matched_fragments": 114, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterocloster clostridioformis", "strain": "strain=NCTC11224", "accession": "GCA_900447015.1", "taxid": 1531, "species_taxid": 1531, "relation_to_type": "suspected-type", "validated": true, "ani": 76.8392, "matched_fragments": 132, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterocloster clostridioformis", "strain": "strain=FDAARGOS_1529", "accession": "GCA_020297485.1", "taxid": 1531, "species_taxid": 1531, "relation_to_type": "suspected-type", "validated": true, "ani": 76.8215, "matched_fragments": 133, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterocloster asparagiformis", "strain": "strain=DSM 15981", "accession": "GCA_025149125.1", "taxid": 333367, "species_taxid": 333367, "relation_to_type": "type", "validated": true, "ani": 76.7675, "matched_fragments": 138, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lacrimispora celerecrescens", "strain": "strain=18A", "accession": "GCA_002797975.1", "taxid": 29354, "species_taxid": 29354, "relation_to_type": "type", "validated": true, "ani": 76.7387, "matched_fragments": 87, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterocloster asparagiformis", "strain": "strain=DSM 15981", "accession": "GCA_000158075.1", "taxid": 333367, "species_taxid": 333367, "relation_to_type": "type", "validated": true, "ani": 76.7254, "matched_fragments": 138, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterocloster clostridioformis", "strain": "strain=ATCC 25537", "accession": "GCA_900113155.1", "taxid": 1531, "species_taxid": 1531, "relation_to_type": "type", "validated": true, "ani": 76.6305, "matched_fragments": 138, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium porci", "strain": "strain=WCA-389-WT-23D1", "accession": "GCA_009696375.1", "taxid": 2605778, "species_taxid": 2605778, "relation_to_type": "type", "validated": true, "ani": 76.5501, "matched_fragments": 88, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] aminophilum", "strain": "strain=DSM 10710", "accession": "GCA_000711825.1", "taxid": 1526, "species_taxid": 1526, "relation_to_type": "type", "validated": true, "ani": 76.4663, "matched_fragments": 63, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Clostridium] aminophilum", "strain": "strain=F", "accession": "GCA_900112885.1", "taxid": 1526, "species_taxid": 1526, "relation_to_type": "type", "validated": true, "ani": 76.4663, "matched_fragments": 63, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schaedlerella arabinosiphila", "strain": "strain=DSM 106076", "accession": "GCA_003885045.1", "taxid": 2044587, "species_taxid": 2044587, "relation_to_type": "type", "validated": true, "ani": 75.9841, "matched_fragments": 60, "total_fragments": 934, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.55, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_018223375.1", "gtdb_species": "s__Clostridium_Q sp000435655", "ani": 98.9118, "matched_fragments": 817, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.36", "min_intra_species_ani": "96.90", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.85", "num_clustered_genomes": 8, "status": "conclusive" }, { "accession": "GCA_018377235.1", "gtdb_species": "s__Clostridium_Q sp018377235", "ani": 87.4106, "matched_fragments": 734, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "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_002160535.1", "gtdb_species": "s__Clostridium_Q saccharolyticum_A", "ani": 80.4128, "matched_fragments": 478, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.46", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.84", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_003435375.1", "gtdb_species": "s__Copromonas sp900066535", "ani": 77.9774, "matched_fragments": 122, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Copromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.23", "min_intra_species_ani": "95.52", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.74", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCA_016302185.1", "gtdb_species": "s__Clostridium_Q sp016302185", "ani": 77.9361, "matched_fragments": 125, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "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_001304875.1", "gtdb_species": "s__Ventrisoma faecale", "ani": 77.5544, "matched_fragments": 185, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Ventrisoma", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.23", "min_intra_species_ani": "97.74", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_900547735.1", "gtdb_species": "s__Clostridium_Q sp900547735", "ani": 77.4837, "matched_fragments": 186, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "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_019114465.1", "gtdb_species": "s__Lachnoclostridium_A avicola", "ani": 77.1341, "matched_fragments": 158, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Lachnoclostridium_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.23", "min_intra_species_ani": "98.89", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_019116745.1", "gtdb_species": "s__Lachnoclostridium_A stercorigallinarum", "ani": 77.1269, "matched_fragments": 130, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Lachnoclostridium_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.47", "min_intra_species_ani": "99.47", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900155545.1", "gtdb_species": "s__Lacrimispora sp900155545", "ani": 77.1175, "matched_fragments": 80, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Lacrimispora", "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_000466485.1", "gtdb_species": "s__Clostridium_Q symbiosum", "ani": 77.1039, "matched_fragments": 183, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Clostridium_Q", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.86", "min_intra_species_ani": "98.57", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.81", "num_clustered_genomes": 32, "status": "-" }, { "accession": "GCF_000424325.1", "gtdb_species": "s__Enterocloster clostridioformis_A", "ani": 77.0139, "matched_fragments": 119, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Enterocloster", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.02", "min_intra_species_ani": "99.02", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000144625.1", "gtdb_species": "s__Lacrimispora saccharolytica", "ani": 76.8974, "matched_fragments": 81, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Lacrimispora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_910577645.1", "gtdb_species": "s__UMGS1370 sp910577645", "ani": 76.8141, "matched_fragments": 96, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__UMGS1370", "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_910585645.1", "gtdb_species": "s__UBA3402 sp910585645", "ani": 76.7101, "matched_fragments": 78, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__UBA3402", "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_018713185.1", "gtdb_species": "s__Copromonas avistercoris", "ani": 76.6081, "matched_fragments": 101, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Copromonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.24", "min_intra_species_ani": "98.19", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.95", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_910575585.1", "gtdb_species": "s__UBA3402 sp910575585", "ani": 76.366, "matched_fragments": 113, "total_fragments": 934, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__UBA3402", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.89", "min_intra_species_ani": "99.85", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "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__Otoolea", "s__Otoolea sp000435655" ], "_genome_taxon": [ "uncultured", "Clostridium", "sp.", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__Otoolea", "s__Otoolea sp000435655", "Bacteria", "Bacillota", "A", "Clostridia", "Lachnospirales", "Lachnospiraceae", "Otoolea", "Otoolea", "sp000435655" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }