{ "type": "genome", "identifier": "GCF_001403615.1", "organism": "Desnuesiella massiliensis", "title": "Desnuesiella massiliensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "URMITE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001403615.1", "bioproject": "PRJNA224116", "biosample": "SAMEA3538358", "wgs_master": "CYSK00000000.1", "refseq_category": "reference genome", "taxid": "1650662", "species_taxid": "1650662", "organism_name": "Desnuesiella massiliensis", "infraspecific_name": "strain=mt10", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/10/07", "asm_name": "Desnusiella massiliensis", "asm_submitter": "URMITE", "gbrs_paired_asm": "GCA_001403615.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/403/615/GCF_001403615.1_Desnusiella_massiliensis", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5503198", "genome_size_ungapped": "5502318", "gc_percent": "32.000000", "replicon_count": "0", "scaffold_count": "14", "contig_count": "16", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001403615.1-RS_2024_04_12", "annotation_date": "2024-04-12", "total_gene_count": "5319", "protein_coding_gene_count": "5188", "non_coding_gene_count": "90", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-10-07", "dateModified": "2015-10-07", "datePublished": "2015-10-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Desnuesiella massiliensis" ], "sample_taxid": [ "1650662" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.515 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5503198", "Number of Sequences": "14", "Longest Sequences (bp)": "1729511", "N50 (bp)": "1398524", "Gap Ratio (%)": "0.016009", "GCcontent (%)": "32.1", "Number of CDSs": "5280", "Average Protein Length": "296.8", "Coding Ratio (%)": "85.4", "Number of rRNAs": "11", "Number of tRNAs": "66", "Number of CRISPRs": "12" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Desnuesiella massiliensis", "strain": "strain=mt10", "accession": "GCA_001403615.1", "taxid": 1650662, "species_taxid": 1650662, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1828, "total_fragments": 1828, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Clostridium oryzae", "strain": "strain=DSM 28571", "accession": "GCA_002029235.1", "taxid": 1450648, "species_taxid": 1450648, "relation_to_type": "type", "validated": true, "ani": 78.7051, "matched_fragments": 122, "total_fragments": 1828, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium lundense", "strain": "strain=DSM 17049", "accession": "GCA_000619945.1", "taxid": 319475, "species_taxid": 319475, "relation_to_type": "type", "validated": true, "ani": 78.5566, "matched_fragments": 220, "total_fragments": 1828, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hathewaya histolytica", "strain": "strain=NCTC503", "accession": "GCA_901482605.1", "taxid": 1498, "species_taxid": 1498, "relation_to_type": "type", "validated": true, "ani": 77.0592, "matched_fragments": 116, "total_fragments": 1828, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium magnum", "strain": "strain=DSM 2767", "accession": "GCA_001623875.1", "taxid": 33954, "species_taxid": 33954, "relation_to_type": "type", "validated": true, "ani": 77.0522, "matched_fragments": 195, "total_fragments": 1828, "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": 77.0161, "matched_fragments": 128, "total_fragments": 1828, "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": 76.9259, "matched_fragments": 178, "total_fragments": 1828, "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": 76.8839, "matched_fragments": 157, "total_fragments": 1828, "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": 76.6661, "matched_fragments": 167, "total_fragments": 1828, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Clostridium magnum", "strain": "strain=DSM 2767", "accession": "GCA_900129955.1", "taxid": 33954, "species_taxid": 33954, "relation_to_type": "type", "validated": true, "ani": 76.6577, "matched_fragments": 182, "total_fragments": 1828, "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": 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1828, "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": 76.0103, "matched_fragments": 155, "total_fragments": 1828, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001403615.1", "gtdb_species": "s__Desnuesiella massiliensis", "ani": 100.0, "matched_fragments": 1828, "total_fragments": 1828, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Desnuesiella", "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": "conclusive" }, { "accession": "GCF_002029235.1", 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77.0815, "matched_fragments": 115, "total_fragments": 1828, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Clostridiales;f__Clostridiaceae;g__Hathewaya", "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_001623875.1", "gtdb_species": "s__Clostridium_AM magnum", "ani": 77.0657, "matched_fragments": 194, "total_fragments": 1828, "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": "99.97", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002327185.1", "gtdb_species": "s__Clostridium chauvoei", "ani": 77.0606, "matched_fragments": 129, "total_fragments": 1828, 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