{ "type": "genome", "identifier": "GCA_018375595.1", "organism": "Propionibacterium sp.", "title": "Propionibacterium sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of California, Berkeley", "publication": [ {} ], "properties": { "assembly_accession": "GCA_018375595.1", "bioproject": "PRJNA698986", "biosample": "SAMN17801399", "wgs_master": "JAHACY000000000.1", "refseq_category": "na", "taxid": "1977903", "species_taxid": "1977903", "organism_name": "Propionibacterium sp.", "infraspecific_name": "", "isolate": "L2_047_000G1_dasL2_047_000G1_concoct_98", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/05/16", "asm_name": "ASM1837559v1", "submitter": "University of California, Berkeley", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/018/375/595/GCA_018375595.1_ASM1837559v1", "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": "2021-05-16", "dateModified": "2021-05-16", "datePublished": "2021-05-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Propionibacterium sp." ], "sample_taxid": [ "1977903" ], "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": "0.752 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 1.5, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2673190", "Number of Sequences": "160", "Longest Sequences (bp)": "85862", "N50 (bp)": "31993", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.4", "Number of CDSs": "2375", "Average Protein Length": "316.1", "Coding Ratio (%)": "84.2", "Number of rRNAs": "0", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Cutibacterium avidum", "strain": "strain=ATCC 25577", "accession": "GCA_000227295.1", "taxid": 33010, "species_taxid": 33010, "relation_to_type": "type", "validated": true, "ani": 96.2987, "matched_fragments": 714, "total_fragments": 814, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Cutibacterium acnes subsp. defendens", "strain": "strain=ATCC 11828", "accession": "GCA_000231215.1", "taxid": 1905725, "species_taxid": 1747, "relation_to_type": "type", "validated": true, "ani": 81.797, "matched_fragments": 531, "total_fragments": 814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cutibacterium 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1747, "species_taxid": 1747, "relation_to_type": "type", "validated": true, "ani": 81.6159, "matched_fragments": 514, "total_fragments": 814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cutibacterium namnetense", "strain": "strain=NTS 31307302", "accession": "GCA_001642025.1", "taxid": 1574624, "species_taxid": 1574624, "relation_to_type": "type", "validated": true, "ani": 81.5509, "matched_fragments": 509, "total_fragments": 814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cutibacterium modestum", "strain": "strain=M12", "accession": "GCA_008326345.1", "taxid": 2559073, "species_taxid": 2559073, "relation_to_type": "type", "validated": true, "ani": 81.3808, "matched_fragments": 530, "total_fragments": 814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Propioniciclava coleopterorum", "strain": "strain=HDW11", "accession": "GCA_011393335.1", "taxid": 2714937, "species_taxid": 2714937, "relation_to_type": 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"matched_fragments": 86, "total_fragments": 814, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardioides cavernaquae", "strain": "strain=K1W22B-1", "accession": "GCA_003600895.1", "taxid": 2321396, "species_taxid": 2321396, "relation_to_type": "type", "validated": true, "ani": 76.6809, "matched_fragments": 90, "total_fragments": 814, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 1.5, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000227295.1", "gtdb_species": "s__Cutibacterium avidum", "ani": 96.2987, "matched_fragments": 714, "total_fragments": 814, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Propionibacteriales;f__Propionibacteriaceae;g__Cutibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.99", "min_intra_species_ani": "95.78", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.87", "num_clustered_genomes": 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"o__Propionibacteriales", "f__Propionibacteriaceae", "g__Cutibacterium", "s__Cutibacterium avidum", "Bacteria", "Actinomycetota", "Actinomycetes", "Propionibacteriales", "Propionibacteriaceae", "Cutibacterium", "Cutibacterium", "avidum" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }