{ "type": "genome", "identifier": "GCA_022649925.1", "organism": "Bifidobacteriaceae bacterium", "title": "Bifidobacteriaceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCA_022649925.1", "bioproject": "PRJNA768587", "biosample": "SAMN22412641", "wgs_master": "JALCOX000000000.1", "refseq_category": "na", "taxid": "2291324", "species_taxid": "2291324", "organism_name": "Bifidobacteriaceae bacterium", "infraspecific_name": "", "isolate": "UW_DM_BIF4_1", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/03/21", "asm_name": "ASM2264992v1", "submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/022/649/925/GCA_022649925.1_ASM2264992v1", "excluded_from_refseq": "derived from metagenome; genus undefined", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-03-21", "dateModified": "2022-03-21", "datePublished": "2022-03-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Bifidobacteriaceae bacterium" ], "sample_taxid": [ "2291324" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Madison, WI", "Freezer" ], "sample_host_location_id": [], "data_size": "0.487 MB", "sample_ph_range": { "min": 55.0, "max": 55.0 }, "sample_temperature_range": { "min": 35.0, "max": 80.0 }, "completeness": 87.5, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1703207", "Number of Sequences": "71", "Longest Sequences (bp)": "95537", "N50 (bp)": "28493", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.3", "Number of CDSs": "1405", "Average Protein Length": "339.4", "Coding Ratio (%)": "84.0", "Number of rRNAs": "0", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bifidobacterium pluvialisilvae", "strain": "strain=82T24", "accession": "GCA_019331695.1", "taxid": 2834436, "species_taxid": 2834436, "relation_to_type": "type", "validated": true, "ani": 77.952, "matched_fragments": 121, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium primatium", "strain": "strain=TRE 1", "accession": "GCA_002802875.1", "taxid": 2045438, "species_taxid": 2045438, "relation_to_type": "type", "validated": true, "ani": 77.7213, "matched_fragments": 123, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium bifidum", "strain": "strain=DSM 20456", "accession": "GCA_000771485.1", "taxid": 1681, "species_taxid": 1681, "relation_to_type": "type", "validated": true, "ani": 77.6626, "matched_fragments": 90, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium saimiriisciurei", "strain": "strain=SMA1", "accession": "GCA_010667655.1", "taxid": 2661627, "species_taxid": 2661627, "relation_to_type": "type", "validated": true, "ani": 77.6407, "matched_fragments": 130, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium aerophilum", "strain": "strain=TRE17", "accession": "GCA_010667685.1", "taxid": 1798155, "species_taxid": 1798155, "relation_to_type": "type", "validated": true, "ani": 77.6158, "matched_fragments": 108, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium bifidum", "strain": "strain=LMG 11041", "accession": "GCA_000741085.1", "taxid": 1681, "species_taxid": 1681, "relation_to_type": "type", "validated": true, "ani": 77.5695, "matched_fragments": 93, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium bifidum", "strain": "strain=NCTC13001", "accession": "GCA_900637095.1", "taxid": 1681, "species_taxid": 1681, "relation_to_type": "type", "validated": true, "ani": 77.5586, "matched_fragments": 94, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium bifidum", "strain": "strain=JCM 1255", "accession": "GCA_001025135.1", "taxid": 1681, "species_taxid": 1681, "relation_to_type": "type", "validated": true, "ani": 77.5519, "matched_fragments": 95, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium bifidum", "strain": "strain=ATCC 29521", "accession": "GCA_000466525.1", "taxid": 1681, "species_taxid": 1681, "relation_to_type": "type", "validated": true, "ani": 77.5111, "matched_fragments": 95, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium stellenboschense", "strain": "strain=DSM 23968", "accession": "GCA_000741785.1", "taxid": 762211, "species_taxid": 762211, "relation_to_type": "type", "validated": true, "ani": 77.4796, "matched_fragments": 105, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium callimiconis", "strain": "strain=2028B", "accession": "GCA_003952005.1", "taxid": 2306973, "species_taxid": 2306973, "relation_to_type": "type", "validated": true, "ani": 77.4754, "matched_fragments": 129, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium aesculapii", "strain": "strain=DSM 26737", "accession": "GCA_001417815.1", "taxid": 1329411, "species_taxid": 1329411, "relation_to_type": "type", "validated": true, "ani": 77.4472, "matched_fragments": 106, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium simiarum", "strain": "strain=TRI 7", "accession": "GCA_002802905.1", "taxid": 2045441, "species_taxid": 2045441, "relation_to_type": "type", "validated": true, "ani": 77.4199, "matched_fragments": 122, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium rousetti", "strain": "strain=RST9", "accession": "GCA_008698235.1", "taxid": 2045439, "species_taxid": 2045439, "relation_to_type": "type", "validated": true, "ani": 77.3423, "matched_fragments": 118, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium santillanense", "strain": "strain=MA2", "accession": "GCA_018555385.1", "taxid": 2809028, "species_taxid": 2809028, "relation_to_type": "type", "validated": true, "ani": 77.3069, "matched_fragments": 122, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium mizhiense", "strain": "strain=S053-2", "accession": "GCA_020884755.1", "taxid": 2879940, "species_taxid": 2879940, "relation_to_type": "type", "validated": true, "ani": 77.3009, "matched_fragments": 69, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium phasiani", "strain": "strain=6T3", "accession": "GCA_019331775.1", "taxid": 2834431, "species_taxid": 2834431, "relation_to_type": "type", "validated": true, "ani": 77.2278, "matched_fragments": 110, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium eulemuris", "strain": "strain=DSM 100216", "accession": "GCA_002259685.1", "taxid": 1765219, "species_taxid": 1765219, "relation_to_type": "type", "validated": true, "ani": 77.2179, "matched_fragments": 98, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium eulemuris", "strain": "strain=DSM 100216", "accession": "GCA_014898155.1", "taxid": 1765219, "species_taxid": 1765219, "relation_to_type": "type", "validated": true, "ani": 77.2165, "matched_fragments": 98, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium mongoliense", "strain": "strain=DSM 21395", "accession": "GCA_000741285.1", "taxid": 518643, "species_taxid": 518643, "relation_to_type": "type", "validated": true, "ani": 77.2142, "matched_fragments": 88, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium choerinum", "strain": "strain=DSM 20434", "accession": "GCA_000771425.1", "taxid": 35760, "species_taxid": 35760, "relation_to_type": "type", "validated": true, "ani": 77.1951, "matched_fragments": 79, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium mongoliense", "strain": "strain=DSM 21395", "accession": "GCA_000771525.1", "taxid": 518643, "species_taxid": 518643, "relation_to_type": "type", "validated": true, "ani": 77.1703, "matched_fragments": 90, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium choerinum", "strain": "strain=DSM 20434", "accession": "GCA_000484675.1", "taxid": 35760, "species_taxid": 35760, "relation_to_type": "type", "validated": true, "ani": 77.1417, "matched_fragments": 84, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium lemurum", "strain": "strain=DSM 28807", "accession": "GCA_002259665.1", "taxid": 1603886, "species_taxid": 1603886, "relation_to_type": "type", "validated": true, "ani": 77.0552, "matched_fragments": 105, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium lemurum", "strain": "strain=DSM 28807", "accession": "GCA_001895165.1", "taxid": 1603886, "species_taxid": 1603886, "relation_to_type": "type", "validated": true, "ani": 77.0473, "matched_fragments": 107, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium italicum", "strain": "strain=Rab10A", "accession": "GCA_002286915.1", "taxid": 1960968, "species_taxid": 1960968, "relation_to_type": "type", "validated": true, "ani": 77.0239, "matched_fragments": 84, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium castoris", "strain": "strain=2020B", "accession": "GCA_003952025.1", "taxid": 2306972, "species_taxid": 2306972, "relation_to_type": "type", "validated": true, "ani": 76.9673, "matched_fragments": 91, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium canis", "strain": "strain=GSD1FS", "accession": "GCA_009727065.1", "taxid": 2610880, "species_taxid": 2610880, "relation_to_type": "type", "validated": true, "ani": 76.9075, "matched_fragments": 77, "total_fragments": 533, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 87.5, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002802875.1", "gtdb_species": "s__Galliscardovia primatium", "ani": 77.7213, "matched_fragments": 123, "total_fragments": 533, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Bifidobacteriaceae;g__Galliscardovia", "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_001042635.1", "gtdb_species": "s__Bifidobacterium scardovii", "ani": 77.6647, "matched_fragments": 114, "total_fragments": 533, "gtdb_taxonomy": 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