{ "type": "genome", "identifier": "GCF_000741455.1", "organism": "Bifidobacterium thermacidophilum subsp. thermacidophilum", "title": "Bifidobacterium thermacidophilum subsp. thermacidophilum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Parma", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000741455.1", "bioproject": "PRJNA224116", "biosample": "SAMN02673457", "wgs_master": "JGZT00000000.1", "refseq_category": "na", "taxid": "79262", "species_taxid": "246618", "organism_name": "Bifidobacterium thermacidophilum subsp. thermacidophilum", "infraspecific_name": "strain=LMG 21395", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/08/18", "asm_name": "Bifthe_sub.the", "asm_submitter": "University of Parma", "gbrs_paired_asm": "GCA_000741455.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/741/455/GCF_000741455.1_Bifthe_sub.the", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2233072", "genome_size_ungapped": "2233072", "gc_percent": "60.500000", "replicon_count": "0", "scaffold_count": "8", "contig_count": "8", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000741455.1-RS_2024_03_27", "annotation_date": "2024-03-27", "total_gene_count": "1764", "protein_coding_gene_count": "1646", "non_coding_gene_count": "61", "pubmed_id": "25085493;25107967" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-08-18", "dateModified": "2014-08-18", "datePublished": "2014-08-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Bifidobacterium thermacidophilum subsp. thermacidophilum" ], "sample_taxid": [ "79262" ], "sample_host_organism": [ "missing" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "0.627 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)": "2233072", "Number of Sequences": "8", "Longest Sequences (bp)": "766239", "N50 (bp)": "490877", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "60.4", "Number of CDSs": "1705", "Average Protein Length": "353.9", "Coding Ratio (%)": "81.1", "Number of rRNAs": "2", "Number of tRNAs": "48", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bifidobacterium thermacidophilum subsp. thermacidophilum", "strain": "strain=LMG 21395", "accession": "GCA_000741455.1", "taxid": 79262, "species_taxid": 246618, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 740, "total_fragments": 740, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Bifidobacterium thermacidophilum subsp. thermacidophilum", "strain": "strain=DSM 15837", "accession": "GCA_000771005.1", "taxid": 79262, "species_taxid": 246618, "relation_to_type": "type", "validated": true, "ani": 99.9779, "matched_fragments": 718, "total_fragments": 740, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Bifidobacterium thermacidophilum subsp. thermacidophilum", "strain": "strain=DSM 15837", "accession": "GCA_000426425.1", "taxid": 79262, "species_taxid": 246618, "relation_to_type": "type", "validated": true, "ani": 99.9716, "matched_fragments": 732, "total_fragments": 740, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Bifidobacterium porcinum", "strain": "strain=DSM 17755", "accession": 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"_bac2feature": { "phenotypes": null, "cell_diameter": -0.022, "cell_length": 0.328, "doubling_h": 0.178, "growth_tmp": 36.851, "optimum_tmp": 36.466, "optimum_ph": 6.377, "genome_size": 2304203.81, "gc_content": 59.795, "coding_genes": 1746.874, "rRNA16S_genes": 3.765, "tRNA_genes": 52.571, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.043, "range_salinity": 0.0, "facultative_respiration": 0.147, "anaerobic_respiration": 0.823, "aerobic_respiration": 0.029, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Bifidobacterium", "thermacidophilum", "subsp.", "thermacidophilum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }