{ "type": "genome", "identifier": "GCF_900637145.1", "organism": "Bifidobacterium breve", "title": "Bifidobacterium breve", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900637145.1", "bioproject": "PRJNA224116", "biosample": "SAMEA4076721", "wgs_master": "na", "refseq_category": "na", "taxid": "1685", "species_taxid": "1685", "organism_name": "Bifidobacterium breve", "infraspecific_name": "strain=NCTC11815", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/20", "asm_name": "49569_E01", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900637145.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/637/145/GCF_900637145.1_49569_E01", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2275664", "genome_size_ungapped": "2275664", "gc_percent": "59.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "NCBI Prokaryotic Genome Annotation Pipeline (PGAP)", "annotation_date": "2024-02-13", "total_gene_count": "2007", "protein_coding_gene_count": "1873", "non_coding_gene_count": "65", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-20", "dateModified": "2018-12-20", "datePublished": "2018-12-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Bifidobacterium breve" ], "sample_taxid": [ "1685" ], "sample_host_organism": [ "Human (Infant)" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.641 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)": "2275664", "Number of Sequences": "1", "Longest Sequences (bp)": "2275664", "N50 (bp)": "2275664", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.9", "Number of CDSs": "1982", "Average Protein Length": "332.1", "Coding Ratio (%)": "86.8", "Number of rRNAs": "6", "Number of tRNAs": "54", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bifidobacterium breve", "strain": "strain=NCTC11815", "accession": "GCA_900637145.1", "taxid": 1685, "species_taxid": 1685, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 757, "total_fragments": 758, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bifidobacterium breve", "strain": "strain=JCM 1192", "accession": "GCA_001025175.1", "taxid": 1685, "species_taxid": 1685, "relation_to_type": "type", "validated": true, "ani": 99.9952, "matched_fragments": 756, "total_fragments": 758, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bifidobacterium breve", "strain": "strain=DSM 20213", "accession": "GCA_000158015.1", "taxid": 1685, "species_taxid": 1685, "relation_to_type": "type", "validated": true, "ani": 99.9842, "matched_fragments": 752, "total_fragments": 758, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bifidobacterium breve", "strain": "strain=DSM 20213", "accession": "GCA_000771305.1", "taxid": 1685, "species_taxid": 1685, "relation_to_type": "type", "validated": true, "ani": 99.9748, "matched_fragments": 735, "total_fragments": 758, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bifidobacterium longum subsp. infantis", "strain": "strain=DSM 20088", "accession": "GCA_000771105.1", "taxid": 1682, "species_taxid": 216816, "relation_to_type": "type", "validated": true, "ani": 87.5944, "matched_fragments": 524, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium longum subsp. suillum", "strain": "strain=SU-851", "accession": "GCA_016882605.1", "taxid": 1931217, "species_taxid": 216816, "relation_to_type": "type", "validated": true, "ani": 87.572, "matched_fragments": 515, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium longum subsp. longum", "strain": "strain=JCM 1217", "accession": "GCA_000196555.1", "taxid": 1679, "species_taxid": 216816, "relation_to_type": "type", "validated": true, "ani": 86.9368, "matched_fragments": 524, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium miconisargentati", "strain": "strain=82T25", "accession": "GCA_019331675.1", "taxid": 2834437, "species_taxid": 2834437, "relation_to_type": "type", "validated": true, "ani": 83.2249, "matched_fragments": 481, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium myosotis", "strain": "strain=DSM 100196", "accession": "GCA_002259745.1", "taxid": 1630166, "species_taxid": 1630166, "relation_to_type": "type", "validated": true, "ani": 82.8888, "matched_fragments": 459, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium amazonense", "strain": "strain=MA1", "accession": "GCA_018555435.2", "taxid": 2809027, "species_taxid": 2809027, "relation_to_type": "type", "validated": true, "ani": 81.2423, "matched_fragments": 357, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium pseudolongum subsp. pseudolongum", "strain": "strain=ATCC 25526", "accession": "GCA_022691205.1", "taxid": 31954, "species_taxid": 1694, "relation_to_type": "type", "validated": true, "ani": 78.7953, "matched_fragments": 210, "total_fragments": 758, "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": 77.7879, "matched_fragments": 132, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Georgenia yuyongxinii", "strain": "strain=Z443", "accession": "GCA_006352065.1", "taxid": 2589797, "species_taxid": 2589797, "relation_to_type": "type", "validated": true, "ani": 77.151, "matched_fragments": 56, "total_fragments": 758, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001025175.1", 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81.199, "matched_fragments": 377, "total_fragments": 758, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Bifidobacteriaceae;g__Bifidobacterium", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.022, "cell_length": 0.328, "doubling_h": 0.178, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": 6.377, "genome_size": 2374244.56, "gc_content": 58.777, "coding_genes": 1891.625, "rRNA16S_genes": 2.385, "tRNA_genes": 54.231, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "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", "breve" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }