{ "type": "genome", "identifier": "GCA_018382375.1", "organism": "Clostridium sp.", "title": "Clostridium sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of California, Berkeley", "publication": [ {} ], "properties": { "assembly_accession": "GCA_018382375.1", "bioproject": "PRJNA698986", "biosample": "SAMN17801065", "wgs_master": "JAGZQC000000000.1", "refseq_category": "na", "taxid": "1506", "species_taxid": "1506", "organism_name": "Clostridium sp.", "infraspecific_name": "", "isolate": "L2_023_126G1_dasL2_023_126G1_maxbin2.maxbin.004", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/05/17", "asm_name": "ASM1838237v1", "submitter": "University of California, Berkeley", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/018/382/375/GCA_018382375.1_ASM1838237v1", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-05-17", "dateModified": "2021-05-17", "datePublished": "2021-05-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Clostridium sp." ], "sample_taxid": [ "1506" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Pittsburgh, Magee-Womens Hospital of UPMC" ], "sample_host_location_id": [], "data_size": "1.053 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)": "3820721", "Number of Sequences": "144", "Longest Sequences (bp)": "264141", "N50 (bp)": "77143", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "30.6", "Number of CDSs": "3723", "Average Protein Length": "297.2", "Coding Ratio (%)": "86.9", "Number of rRNAs": "3", "Number of tRNAs": "50", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Clostridium paraputrificum", "strain": "strain=NCTC11833", "accession": "GCA_900447045.1", "taxid": 29363, "species_taxid": 29363, "relation_to_type": "type", "validated": true, "ani": 95.543, "matched_fragments": 1008, "total_fragments": 1204, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Clostridium cibarium", "strain": "strain=Sa3CVN1", "accession": "GCA_014836335.1", "taxid": 2762247, "species_taxid": 2762247, "relation_to_type": "type", "validated": true, "ani": 78.3287, "matched_fragments": 293, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium tertium", "strain": "strain=DSM 2485", "accession": "GCA_017873245.1", "taxid": 1559, "species_taxid": 1559, "relation_to_type": "type", "validated": true, "ani": 78.1442, "matched_fragments": 314, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium septicum", "strain": "strain=FDAARGOS_1551", "accession": "GCA_020736665.1", "taxid": 1504, "species_taxid": 1504, "relation_to_type": "type", "validated": true, "ani": 78.0509, "matched_fragments": 246, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium chauvoei", "strain": "strain=DSM 7528", "accession": "GCA_002327185.1", "taxid": 46867, "species_taxid": 46867, "relation_to_type": "type", "validated": true, "ani": 78.0402, "matched_fragments": 237, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium saudiense", "strain": "strain=JCC", "accession": "GCA_000577815.1", "taxid": 1414720, "species_taxid": 1414720, "relation_to_type": "type", "validated": true, "ani": 77.8397, "matched_fragments": 243, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium celatum", "strain": "strain=DSM 1785", "accession": "GCA_000320405.1", "taxid": 36834, "species_taxid": 36834, "relation_to_type": "type", "validated": true, "ani": 77.8163, "matched_fragments": 246, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium nigeriense", "strain": "strain=Marseille-P2414", "accession": "GCA_900086595.1", "taxid": 1805470, "species_taxid": 1805470, "relation_to_type": "type", "validated": true, "ani": 77.8085, "matched_fragments": 279, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium cagae", "strain": "strain=Marseille-P4344", "accession": "GCA_900290265.1", "taxid": 2080751, "species_taxid": 2080751, "relation_to_type": "type", "validated": true, "ani": 77.7691, "matched_fragments": 264, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium thermobutyricum", "strain": "strain=DSM 4928", "accession": "GCA_002050515.1", "taxid": 29372, "species_taxid": 29372, "relation_to_type": "type", "validated": true, "ani": 77.7671, "matched_fragments": 254, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium gallinarum", "strain": "strain=Sa3CUN1", "accession": "GCA_014836325.1", "taxid": 2762246, "species_taxid": 2762246, "relation_to_type": "type", "validated": true, "ani": 77.7568, "matched_fragments": 272, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium perfringens", "strain": "strain=FDAARGOS_903", "accession": "GCA_016027375.1", "taxid": 1502, "species_taxid": 1502, "relation_to_type": "type", "validated": true, "ani": 77.6003, "matched_fragments": 186, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium vincentii", "strain": "strain=DSM 10228", "accession": "GCA_002995745.1", "taxid": 52704, "species_taxid": 52704, "relation_to_type": "type", "validated": true, "ani": 77.5473, "matched_fragments": 252, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium fallax", "strain": "strain=NCTC8380", "accession": "GCA_900461065.1", "taxid": 1533, "species_taxid": 1533, "relation_to_type": "type", "validated": true, "ani": 77.2399, "matched_fragments": 192, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium fallax", "strain": "strain=DSM 2631", "accession": "GCA_900129365.1", "taxid": 1533, "species_taxid": 1533, "relation_to_type": "type", "validated": true, "ani": 77.2178, "matched_fragments": 192, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium saccharoperbutylacetonicum", "strain": "strain=ATCC 27021", "accession": "GCA_000334435.1", "taxid": 36745, "species_taxid": 36745, "relation_to_type": "type", "validated": true, "ani": 77.2073, "matched_fragments": 219, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium gelidum", "strain": "strain=C5S11", "accession": "GCA_019977655.1", "taxid": 704125, "species_taxid": 704125, "relation_to_type": "type", "validated": true, "ani": 77.1981, "matched_fragments": 210, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium saccharoperbutylacetonicum", "strain": "strain=N1-4(HMT)", "accession": "GCA_000340885.1", "taxid": 36745, "species_taxid": 36745, "relation_to_type": "type", "validated": true, "ani": 77.1873, "matched_fragments": 223, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium cavendishii", "strain": "strain=DSM 21758", "accession": "GCA_900141845.1", "taxid": 349931, "species_taxid": 349931, "relation_to_type": "type", "validated": true, "ani": 77.152, "matched_fragments": 219, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium chrysemydis", "strain": "strain=PT", "accession": "GCA_015234215.1", "taxid": 2665504, "species_taxid": 2665504, "relation_to_type": "type", "validated": true, "ani": 77.0898, "matched_fragments": 231, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium intestinale", "strain": "strain=DSM 6191", "accession": "GCA_900130055.1", "taxid": 36845, "species_taxid": 36845, "relation_to_type": "type", "validated": true, "ani": 76.9129, "matched_fragments": 155, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium puniceum", "strain": "strain=DSM 2619", "accession": "GCA_002006345.1", "taxid": 29367, "species_taxid": 29367, "relation_to_type": "type", "validated": true, "ani": 76.8789, "matched_fragments": 244, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium zeae", "strain": "strain=CSC2", "accession": "GCA_017312485.1", "taxid": 2759022, "species_taxid": 2759022, "relation_to_type": "type", "validated": true, "ani": 76.7996, "matched_fragments": 171, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium simiarum", "strain": "strain=MSJ-4", "accession": "GCA_018919175.1", "taxid": 2841506, "species_taxid": 2841506, "relation_to_type": "type", "validated": true, "ani": 76.1884, "matched_fragments": 119, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium massiliodielmoense", "strain": "strain=MT26", "accession": "GCA_900176615.1", "taxid": 1776385, "species_taxid": 1776385, "relation_to_type": "type", "validated": true, "ani": 76.0396, "matched_fragments": 115, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium thailandense", "strain": "strain=PL3", "accession": "GCA_019207025.1", "taxid": 2794346, "species_taxid": 2794346, "relation_to_type": "type", "validated": true, "ani": 75.8119, "matched_fragments": 113, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium felsineum", "strain": "strain=DSM 794", "accession": "GCA_002006355.2", "taxid": 36839, "species_taxid": 36839, "relation_to_type": "type", "validated": true, "ani": 75.7489, "matched_fragments": 108, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium felsineum", "strain": "strain=DSM 793", "accession": "GCA_002006235.2", "taxid": 36839, "species_taxid": 36839, "relation_to_type": "type", "validated": true, "ani": 75.7021, "matched_fragments": 95, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium felsineum", "strain": "strain=DSM 7320", "accession": "GCA_002006215.2", "taxid": 36839, "species_taxid": 36839, "relation_to_type": "type", "validated": true, "ani": 75.6709, "matched_fragments": 106, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium autoethanogenum", "strain": "strain=DSM 10061", "accession": "GCA_000484505.2", "taxid": 84023, "species_taxid": 84023, "relation_to_type": "suspected-type", "validated": true, "ani": 75.4323, "matched_fragments": 74, "total_fragments": 1204, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900447045.1", "gtdb_species": "s__Clostridium paraputrificum", "ani": 95.543, "matched_fragments": 1008, "total_fragments": 1204, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.58", "min_intra_species_ani": "95.42", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.83", "num_clustered_genomes": 29, "status": "conclusive" }, { "accession": "GCA_018372875.1", "gtdb_species": "s__Clostridium sp018372875", "ani": 94.8233, "matched_fragments": 902, "total_fragments": 1204, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.91", "min_intra_species_ani": "98.91", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900539375.1", "gtdb_species": "s__Clostridium sp900539375", "ani": 78.5378, "matched_fragments": 257, "total_fragments": 1204, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.09", "min_intra_species_ani": "99.02", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_007115085.1", "gtdb_species": "s__Clostridium sp007115085", "ani": 78.4182, "matched_fragments": 290, "total_fragments": 1204, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.42", "min_intra_species_ani": "99.42", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_015058405.1", "gtdb_species": "s__Clostridium sp015058405", "ani": 78.4131, "matched_fragments": 292, "total_fragments": 1204, "gtdb_taxonomy": 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