{ "type": "genome", "identifier": "GCF_004011155.1", "organism": "Clostridium prolinivorans", "title": "Clostridium prolinivorans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Biogas Institute of Ministry of Agriculture", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004011155.1", "bioproject": "PRJNA224116", "biosample": "SAMN10397787", "wgs_master": "RJWG00000000.1", "refseq_category": "reference genome", "taxid": "2769420", "species_taxid": "2769420", "organism_name": "Clostridium prolinivorans", "infraspecific_name": "strain=PYR-10", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/01/10", "asm_name": "ASM401115v1", "asm_submitter": "Biogas Institute of Ministry of Agriculture", "gbrs_paired_asm": "GCA_004011155.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/011/155/GCF_004011155.1_ASM401115v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2615293", "genome_size_ungapped": "2615293", "gc_percent": "27.500000", "replicon_count": "0", "scaffold_count": "60", "contig_count": "60", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004011155.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "2492", "protein_coding_gene_count": "2385", "non_coding_gene_count": "62", "pubmed_id": "31199222" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-01-10", "dateModified": "2019-01-10", "datePublished": "2019-01-10", "_annotation": { "sample_count": 1, "sample_organism": [ "Clostridium prolinivorans" ], "sample_taxid": [ "2769420" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Chengdu, Sichuan" ], "sample_host_location_id": [], "data_size": "0.707 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)": "2615293", "Number of Sequences": "60", "Longest Sequences (bp)": "565418", "N50 (bp)": "240152", "Gap Ratio (%)": "0.000459", "GCcontent (%)": "27.7", "Number of CDSs": "2413", "Average Protein Length": "311.4", "Coding Ratio (%)": "86.2", "Number of rRNAs": "3", "Number of tRNAs": "53", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Clostridium prolinivorans", "strain": "strain=PYR-10", "accession": "GCA_004011155.1", "taxid": 2769420, "species_taxid": 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"ani": 76.6245, "matched_fragments": 234, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium liquoris", "strain": "strain=DSM 100320", "accession": "GCA_002995785.1", "taxid": 1289519, "species_taxid": 1289519, "relation_to_type": "type", "validated": true, "ani": 76.5909, "matched_fragments": 153, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium carboxidivorans", "strain": "strain=P7", "accession": "GCA_001038625.1", "taxid": 217159, "species_taxid": 217159, "relation_to_type": "type", "validated": true, "ani": 76.5081, "matched_fragments": 226, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium carboxidivorans", "strain": "strain=P7", "accession": "GCA_000175595.1", "taxid": 217159, "species_taxid": 217159, "relation_to_type": "type", "validated": true, "ani": 76.4558, "matched_fragments": 217, "total_fragments": 846, "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": 76.3946, "matched_fragments": 172, "total_fragments": 846, "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": 76.3686, "matched_fragments": 177, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Haloimpatiens massiliensis", "strain": "strain=Mt13", "accession": "GCA_900184255.1", "taxid": 1658110, "species_taxid": 1658110, "relation_to_type": "type", "validated": true, "ani": 76.3643, "matched_fragments": 175, "total_fragments": 846, "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": 76.3241, "matched_fragments": 175, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium pasteurianum", "strain": "strain=ATCC 6013", "accession": "GCA_001856645.1", "taxid": 1501, "species_taxid": 1501, "relation_to_type": "type", "validated": true, "ani": 76.2163, "matched_fragments": 183, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium pasteurianum", "strain": "strain=DSM 525", "accession": "GCA_000330945.1", "taxid": 1501, "species_taxid": 1501, "relation_to_type": "type", "validated": true, "ani": 76.1955, "matched_fragments": 181, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium pasteurianum", "strain": "strain=DSM 525", "accession": "GCA_000807255.1", "taxid": 1501, "species_taxid": 1501, "relation_to_type": "type", "validated": true, "ani": 76.1897, "matched_fragments": 188, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium sporogenes", "strain": "strain=DSM 795", "accession": "GCA_001020205.1", "taxid": 1509, "species_taxid": 1509, "relation_to_type": "type", "validated": true, "ani": 76.1648, "matched_fragments": 202, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium sporogenes", "strain": "strain=NCIMB 10696", "accession": "GCA_000973705.1", "taxid": 1509, "species_taxid": 1509, "relation_to_type": "type", "validated": true, "ani": 76.1627, "matched_fragments": 206, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium sporogenes", "strain": "strain=NCTC13020", "accession": "GCA_900461305.1", "taxid": 1509, "species_taxid": 1509, "relation_to_type": "type", "validated": true, "ani": 76.1552, "matched_fragments": 204, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium mobile", "strain": "strain=MSJ-11", "accession": "GCA_018918285.1", "taxid": 2841512, "species_taxid": 2841512, "relation_to_type": "type", "validated": true, "ani": 76.1189, "matched_fragments": 155, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium isatidis", "strain": "strain=DSM 15098", "accession": "GCA_002285495.1", "taxid": 182773, "species_taxid": 182773, "relation_to_type": "type", "validated": true, "ani": 76.0916, "matched_fragments": 133, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium hydrogenum", "strain": "strain=CUEA01", "accession": "GCA_021432385.1", "taxid": 2855764, "species_taxid": 2855764, "relation_to_type": "type", "validated": true, "ani": 76.0406, "matched_fragments": 177, "total_fragments": 846, "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": 76.0331, "matched_fragments": 159, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium polyendosporum", "strain": "strain=JCM 30710", "accession": "GCA_018332455.1", "taxid": 69208, "species_taxid": 69208, "relation_to_type": "type", "validated": true, "ani": 75.9648, "matched_fragments": 135, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium algidicarnis", "strain": "strain=DSM 15099", "accession": "GCA_002934235.1", "taxid": 37659, "species_taxid": 37659, "relation_to_type": "type", "validated": true, "ani": 75.9213, "matched_fragments": 131, "total_fragments": 846, "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": 75.7632, "matched_fragments": 187, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium cibarium", "strain": "strain=Sa3CVN1", "accession": "GCA_014836335.1", "taxid": 2762247, "species_taxid": 2762247, "relation_to_type": "type", "validated": true, "ani": 75.734, "matched_fragments": 127, "total_fragments": 846, "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": 75.2343, "matched_fragments": 118, "total_fragments": 846, "ani_threshold": 95, "status": "below_threshold" } ], 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"num_clustered_genomes": 1, "status": "-" }, { "accession": "GCA_000466585.1", "gtdb_species": "s__F0540 sp000466585", "ani": 77.7368, "matched_fragments": 249, "total_fragments": 846, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__F0540", "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_002008345.1", "gtdb_species": "s__Clostridium_F tepidum", "ani": 76.6901, "matched_fragments": 211, "total_fragments": 846, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_F", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.70", "min_intra_species_ani": "99.54", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.92", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000968375.1", "gtdb_species": "s__Clostridium_AM scatologenes", "ani": 76.6342, "matched_fragments": 233, "total_fragments": 846, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AM", "ani_circumscription_radius": 96.092, "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_900185645.1", "gtdb_species": "s__Clostridium_AK sp900185645", "ani": 76.543, "matched_fragments": 154, "total_fragments": 846, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AK", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.24", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.82", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001758365.1", "gtdb_species": "s__Clostridium_C acetireducens", "ani": 76.521, "matched_fragments": 199, "total_fragments": 846, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_C", "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_001038625.1", "gtdb_species": "s__Clostridium_AM carboxidivorans", "ani": 76.4987, "matched_fragments": 227, "total_fragments": 846, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AM", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.96", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900184255.1", "gtdb_species": "s__Haloimpatiens massiliensis", "ani": 76.4036, "matched_fragments": 175, "total_fragments": 846, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Haloimpatiens", "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_900129365.1", "gtdb_species": "s__Clostridium_AH fallax", "ani": 76.3954, "matched_fragments": 172, "total_fragments": 846, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_AH", "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": "GCF_000014125.1", "gtdb_species": "s__Clostridium_H novyi", "ani": 76.3159, "matched_fragments": 146, "total_fragments": 846, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_H", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.92", "min_intra_species_ani": "96.35", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_001889325.1", "gtdb_species": "s__Clostridium_F botulinum_A", "ani": 76.2586, "matched_fragments": 210, "total_fragments": 846, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Clostridium_F", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.92", "min_intra_species_ani": "95.51", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.85", "num_clustered_genomes": 52, "status": "-" }, { "accession": "GCF_000807255.1", "gtdb_species": "s__Clostridium_I pasteurianum", "ani": 76.2091, "matched_fragments": 186, "total_fragments": 846, "gtdb_taxonomy": 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