{ "type": "genome", "identifier": "GCF_002860355.1", "organism": "Bifidobacterium margollesii", "title": "Bifidobacterium margollesii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Parma", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002860355.1", "bioproject": "PRJNA224116", "biosample": "SAMN07357716", "wgs_master": "NMWU00000000.1", "refseq_category": "reference genome", "taxid": "2020964", "species_taxid": "2020964", "organism_name": "Bifidobacterium margollesii", "infraspecific_name": "strain=Uis1B", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/01/04", "asm_name": "ASM286035v1", "asm_submitter": "University of Parma", "gbrs_paired_asm": "GCA_002860355.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/860/355/GCF_002860355.1_ASM286035v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2789387", "genome_size_ungapped": "2789387", "gc_percent": "62.000000", "replicon_count": "0", "scaffold_count": "80", "contig_count": "80", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002860355.1-RS_2024_04_15", "annotation_date": "2024-04-15", "total_gene_count": "2371", "protein_coding_gene_count": "2253", "non_coding_gene_count": "79", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-01-04", "dateModified": "2018-01-04", "datePublished": "2018-01-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Bifidobacterium margollesii" ], "sample_taxid": [ "2020964" ], "sample_host_organism": [ "pygmy marmoset" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Italy" ], "sample_host_location_id": [], "data_size": "0.778 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)": "2789387", "Number of Sequences": "80", "Longest Sequences (bp)": "229786", "N50 (bp)": "82667", "Gap Ratio (%)": "0.001685", "GCcontent (%)": "61.9", "Number of CDSs": "2221", "Average Protein Length": "349.6", "Coding Ratio (%)": "83.5", "Number of rRNAs": "4", "Number of tRNAs": "62", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bifidobacterium margollesii", "strain": "strain=Uis1B", "accession": "GCA_002860355.1", "taxid": 2020964, "species_taxid": 2020964, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 884, 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"below_threshold" }, { "organism_name": "Bifidobacterium vansinderenii", "strain": "strain=Tam10B", "accession": "GCA_002234915.1", "taxid": 1984871, "species_taxid": 1984871, "relation_to_type": "type", "validated": true, "ani": 82.5896, "matched_fragments": 479, "total_fragments": 886, "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": 82.4111, "matched_fragments": 473, "total_fragments": 886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium tissieri", "strain": "strain=DSM 100201", "accession": "GCA_002259645.1", "taxid": 1630162, "species_taxid": 1630162, "relation_to_type": "type", "validated": true, "ani": 82.2104, "matched_fragments": 464, "total_fragments": 886, "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": 81.153, "matched_fragments": 356, "total_fragments": 886, "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": 80.9226, "matched_fragments": 355, "total_fragments": 886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium scardovii", "strain": "strain=JCM 12489", "accession": "GCA_001042635.1", "taxid": 158787, "species_taxid": 158787, "relation_to_type": "type", "validated": true, "ani": 80.8522, "matched_fragments": 337, "total_fragments": 886, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bifidobacterium scardovii", "strain": 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