{ "type": "genome", "identifier": "GCA_022773705.1", "organism": "Collinsella sp.", "title": "Collinsella sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "AAFC", "publication": [ {} ], "properties": { "assembly_accession": "GCA_022773705.1", "bioproject": "PRJNA629856", "biosample": "SAMN26526096", "wgs_master": "JALFOR000000000.1", "refseq_category": "na", "taxid": "1965294", "species_taxid": "1965294", "organism_name": "Collinsella sp.", "infraspecific_name": "", "isolate": "SUG872", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/04/01", "asm_name": "ASM2277370v1", "submitter": "AAFC", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/022/773/705/GCA_022773705.1_ASM2277370v1", "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": "2022-04-01", "dateModified": "2022-04-01", "datePublished": "2022-04-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Collinsella sp." ], "sample_taxid": [ "1965294" ], "sample_host_organism": [ "Sus scrofa domesticus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada:Lacombe" ], "sample_host_location_id": [], "data_size": "0.457 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 94.91, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1604329", "Number of Sequences": "220", "Longest Sequences (bp)": "37779", "N50 (bp)": "10090", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.3", "Number of CDSs": "1236", "Average Protein Length": "321.9", "Coding Ratio (%)": "74.4", "Number of rRNAs": "0", "Number of tRNAs": "43", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Collinsella aerofaciens", "strain": "strain=ATCC 25986", "accession": "GCA_000169035.1", "taxid": 74426, "species_taxid": 74426, "relation_to_type": "type", "validated": true, "ani": 91.5715, "matched_fragments": 379, "total_fragments": 407, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella aerofaciens", "strain": "strain=JCM 10188", "accession": "GCA_010509075.1", "taxid": 74426, "species_taxid": 74426, "relation_to_type": "type", "validated": true, "ani": 91.5472, "matched_fragments": 377, "total_fragments": 407, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella aerofaciens", "strain": "strain=NCTC11838", "accession": "GCA_900461335.1", "taxid": 74426, "species_taxid": 74426, "relation_to_type": "type", "validated": true, "ani": 91.4833, "matched_fragments": 387, "total_fragments": 407, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella bouchesdurhonensis", "strain": "strain=Marseille-P3296", "accession": "GCA_900155365.1", "taxid": 1907654, "species_taxid": 1907654, "relation_to_type": "type", "validated": true, "ani": 79.9532, "matched_fragments": 186, "total_fragments": 407, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella tanakaei", "strain": "strain=YIT 12063", "accession": "GCA_000225705.1", "taxid": 626935, "species_taxid": 626935, "relation_to_type": "suspected-type", "validated": true, "ani": 79.923, "matched_fragments": 167, "total_fragments": 407, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella intestinalis", "strain": "strain=DSM 13280", "accession": "GCA_000156175.1", "taxid": 147207, "species_taxid": 147207, "relation_to_type": "suspected-type", "validated": true, "ani": 79.8728, "matched_fragments": 171, "total_fragments": 407, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella stercoris", "strain": "strain=DSM 13279", "accession": "GCA_000156215.1", "taxid": 147206, "species_taxid": 147206, "relation_to_type": "type", "validated": true, "ani": 79.8523, "matched_fragments": 179, "total_fragments": 407, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enorma burkinafasonensis", "strain": "strain=Marseille-P9525", "accession": "GCA_902150035.1", "taxid": 2590867, "species_taxid": 2590867, "relation_to_type": "type", "validated": true, "ani": 79.707, "matched_fragments": 158, "total_fragments": 407, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Collinsella phocaeensis", "strain": "strain=Marseille-P3245", "accession": "GCA_900119895.1", "taxid": 1871016, "species_taxid": 1871016, "relation_to_type": "type", "validated": true, "ani": 79.6927, "matched_fragments": 170, "total_fragments": 407, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enorma timonensis", "strain": "strain=GD5", "accession": "GCA_000321165.1", "taxid": 1232436, "species_taxid": 1232436, "relation_to_type": "type", "validated": true, "ani": 78.7236, "matched_fragments": 163, "total_fragments": 407, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 94.91, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009696325.1", "gtdb_species": "s__Collinsella sp002391315", "ani": 98.4514, "matched_fragments": 388, "total_fragments": 407, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.76", "min_intra_species_ani": "96.47", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.80", "num_clustered_genomes": 15, "status": "conclusive" }, { "accession": "GCA_900541195.1", "gtdb_species": "s__Collinsella sp900541195", "ani": 92.1908, "matched_fragments": 364, "total_fragments": 407, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "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_008680965.1", "gtdb_species": "s__Collinsella aerofaciens_L", "ani": 92.0659, "matched_fragments": 378, "total_fragments": 407, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.14", "min_intra_species_ani": "95.14", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900545075.1", "gtdb_species": "s__Collinsella sp900545075", "ani": 92.0366, "matched_fragments": 343, "total_fragments": 407, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.97", "min_intra_species_ani": "98.97", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900756725.1", "gtdb_species": "s__Collinsella sp900756725", "ani": 91.8738, "matched_fragments": 315, "total_fragments": 407, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Coriobacteriia;o__Coriobacteriales;f__Coriobacteriaceae;g__Collinsella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.39", "min_intra_species_ani": "95.39", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900548935.1", 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