{ "type": "genome", "identifier": "GCF_900107245.1", "organism": "Lachnobacterium bovis DSM 14045", "title": "Lachnobacterium bovis DSM 14045", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900107245.1", "bioproject": "PRJNA224116", "biosample": "SAMN02910414", "wgs_master": "FNPG00000000.1", "refseq_category": "reference genome", "taxid": "1122142", "species_taxid": "140626", "organism_name": "Lachnobacterium bovis DSM 14045", "infraspecific_name": "strain=DSM 14045", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/22", "asm_name": "IMG-taxon 2593339158 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900107245.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/107/245/GCF_900107245.1_IMG-taxon_2593339158_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2717066", "genome_size_ungapped": "2709759", "gc_percent": "31.500000", "replicon_count": "0", "scaffold_count": "58", "contig_count": "58", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900107245.1-RS_2024_12_13", "annotation_date": "2024-12-13", "total_gene_count": "2501", "protein_coding_gene_count": "2384", "non_coding_gene_count": "75", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-22", "dateModified": "2016-10-22", "datePublished": "2016-10-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Lachnobacterium bovis DSM 14045" ], "sample_taxid": [ "1122142" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Canada:Alberta, Canada" ], "sample_host_location_id": [], "data_size": "0.751 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 1.04, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "2717066", "Number of Sequences": "58", "Longest Sequences (bp)": "270225", "N50 (bp)": "100117", "Gap Ratio (%)": "0.268930", "GCcontent (%)": "31.3", "Number of CDSs": "2395", "Average Protein Length": "326.8", "Coding Ratio (%)": "86.4", "Number of rRNAs": "0", "Number of tRNAs": "59", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lachnobacterium bovis", "strain": "strain=DSM 14045", "accession": "GCA_900107245.1", "taxid": 140626, "species_taxid": 140626, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 874, "total_fragments": 880, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Eubacterium oxidoreducens", "strain": "strain=DSM 3217", "accession": "GCA_900104415.1", "taxid": 1732, "species_taxid": 1732, "relation_to_type": "type", "validated": true, "ani": 83.2601, "matched_fragments": 58, "total_fragments": 880, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lachnospira multipara", "strain": "strain=ATCC 19207", "accession": "GCA_000424105.1", "taxid": 28051, "species_taxid": 28051, "relation_to_type": "type", "validated": true, "ani": 78.478, "matched_fragments": 68, "total_fragments": 880, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Eubacterium uniforme", "strain": "strain=ATCC 35992", "accession": "GCA_900167115.1", "taxid": 39495, "species_taxid": 39495, "relation_to_type": "type", "validated": true, "ani": 77.0312, "matched_fragments": 75, "total_fragments": 880, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerosacchariphilus polymeriproducens", "strain": "strain=MCWD5", "accession": "GCA_003363435.1", "taxid": 1812858, "species_taxid": 1812858, "relation_to_type": "type", "validated": true, "ani": 76.7696, "matched_fragments": 61, "total_fragments": 880, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerosporobacter faecicola", "strain": "strain=KCTC 15857", "accession": "GCA_012070565.1", "taxid": 2718714, "species_taxid": 2718714, "relation_to_type": "type", "validated": true, "ani": 76.2939, "matched_fragments": 51, "total_fragments": 880, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lachnotalea glycerini", "strain": "strain=DSM 28816", "accession": "GCA_003201285.1", "taxid": 1763509, "species_taxid": 1763509, "relation_to_type": "type", "validated": true, "ani": 76.2911, "matched_fragments": 60, "total_fragments": 880, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Anaerosporobacter mobilis", "strain": "strain=DSM 15930", "accession": "GCA_900142955.1", "taxid": 264463, "species_taxid": 264463, "relation_to_type": "type", "validated": true, "ani": 76.2119, "matched_fragments": 58, "total_fragments": 880, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 1.04, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900107245.1", "gtdb_species": "s__Lachnobacterium bovis", "ani": 100.0, "matched_fragments": 874, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Lachnobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.23", "min_intra_species_ani": "99.14", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_900111325.1", "gtdb_species": "s__Lachnobacterium bovis_A", "ani": 85.0287, "matched_fragments": 621, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Lachnobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.27", "min_intra_species_ani": "99.17", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_900113385.1", "gtdb_species": "s__Lachnobacterium sp900113385", "ani": 80.6385, "matched_fragments": 397, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Lachnobacterium", "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_001940165.1", "gtdb_species": "s__Roseburia sp001940165", "ani": 78.1751, "matched_fragments": 74, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Roseburia", "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_015057035.1", "gtdb_species": "s__Agathobacter sp015057035", "ani": 78.0157, "matched_fragments": 53, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Agathobacter", "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_017623935.1", "gtdb_species": "s__Agathobacter sp017623935", "ani": 77.0895, "matched_fragments": 64, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Agathobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.03", "min_intra_species_ani": "99.03", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.82", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001940225.1", "gtdb_species": "s__14-2 sp001940225", "ani": 76.8783, "matched_fragments": 77, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__14-2", "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_002299665.1", "gtdb_species": "s__CAG-45 sp002299665", "ani": 76.8165, "matched_fragments": 51, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__CAG-45", "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_003363435.1", "gtdb_species": "s__Anaerosacchariphilus polymeriproducens", "ani": 76.7696, "matched_fragments": 61, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Anaerosacchariphilus", "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_018918265.1", "gtdb_species": "s__Falcatimonas sp018918265", "ani": 76.5939, "matched_fragments": 73, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Falcatimonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.30", "min_intra_species_ani": "98.30", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_910586005.1", "gtdb_species": "s__14-2 sp910586005", "ani": 76.3323, "matched_fragments": 54, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__14-2", "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_017625255.1", "gtdb_species": "s__1XD42-69 sp017625255", "ani": 76.0535, "matched_fragments": 58, "total_fragments": 880, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__1XD42-69", "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": -0.222, "cell_length": 0.301, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 37.0, "optimum_ph": null, "genome_size": 2643933.6, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Lachnobacterium", "bovis", "DSM", "14045" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }