{ "type": "genome", "identifier": "GCA_024694995.1", "organism": "Lachnospiraceae bacterium", "title": "Lachnospiraceae bacterium", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "Baqiyatallah University of Medical Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCA_024694995.1", "bioproject": "PRJNA746430", "biosample": "SAMN20246897", "wgs_master": "JAILIZ000000000.1", "refseq_category": "na", "taxid": "1898203", "species_taxid": "1898203", "organism_name": "Lachnospiraceae bacterium", "infraspecific_name": "", "isolate": "RUI163", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/08/15", "asm_name": "ASM2469499v1", "submitter": "Baqiyatallah University of Medical Sciences", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/024/694/995/GCA_024694995.1_ASM2469499v1", "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": "2022-08-15", "dateModified": "2022-08-15", "datePublished": "2022-08-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Lachnospiraceae bacterium" ], "sample_taxid": [ "1898203" ], "sample_host_organism": [ "camel" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Iran: Karaj" ], "sample_host_location_id": [], "data_size": "0.547 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 81.77, "contamination": 4.17, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1904535", "Number of Sequences": "337", "Longest Sequences (bp)": "31235", "N50 (bp)": "7468", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "39.0", "Number of CDSs": "1394", "Average Protein Length": "328.8", "Coding Ratio (%)": "72.2", "Number of rRNAs": "0", "Number of tRNAs": "19", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudobutyrivibrio xylanivorans", "strain": "strain=DSM 14809", "accession": "GCA_900141825.1", "taxid": 185007, "species_taxid": 185007, "relation_to_type": "type", "validated": true, "ani": 77.4153, "matched_fragments": 62, "total_fragments": 456, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudobutyrivibrio ruminis", "strain": "strain=DSM 9787", "accession": "GCA_900218035.1", "taxid": 46206, "species_taxid": 46206, "relation_to_type": "suspected-type", "validated": true, "ani": 77.3495, "matched_fragments": 65, "total_fragments": 456, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 81.77, "contamination": 4.17, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCA_017634455.1", "gtdb_species": "s__AM51-8 sp017634455", "ani": 95.8713, "matched_fragments": 391, "total_fragments": 456, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__AM51-8", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.81", "min_intra_species_ani": "95.62", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCA_017470985.1", "gtdb_species": "s__AM51-8 sp017470985", "ani": 89.6724, "matched_fragments": 391, "total_fragments": 456, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__AM51-8", "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_000702525.1", "gtdb_species": "s__FD2005 sp000702525", "ani": 77.8331, "matched_fragments": 50, "total_fragments": 456, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__FD2005", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.01", "min_intra_species_ani": "97.90", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_017471675.1", "gtdb_species": "s__Pseudobutyrivibrio sp017471675", "ani": 77.6476, "matched_fragments": 61, "total_fragments": 456, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Pseudobutyrivibrio", "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_015057245.1", "gtdb_species": "s__Pseudobutyrivibrio ruminis_E", "ani": 77.439, "matched_fragments": 63, "total_fragments": 456, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Pseudobutyrivibrio", "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_017934625.1", "gtdb_species": "s__Pseudobutyrivibrio sp017934625", "ani": 77.4257, "matched_fragments": 58, "total_fragments": 456, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Pseudobutyrivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.77", "min_intra_species_ani": "98.77", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900218035.1", "gtdb_species": "s__Pseudobutyrivibrio ruminis", "ani": 77.3495, "matched_fragments": 65, "total_fragments": 456, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Pseudobutyrivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.30", "min_intra_species_ani": "96.03", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.83", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_900546435.1", "gtdb_species": "s__AM51-8 sp900546435", "ani": 76.9129, "matched_fragments": 64, "total_fragments": 456, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__AM51-8", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.06", "min_intra_species_ani": "96.69", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.85", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCA_015057315.1", "gtdb_species": "s__Pseudobutyrivibrio ruminis_D", "ani": 76.9098, "matched_fragments": 63, "total_fragments": 456, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_A;c__Clostridia;o__Lachnospirales;f__Lachnospiraceae;g__Pseudobutyrivibrio", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.62", "min_intra_species_ani": "96.62", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.239, "cell_length": 0.277, "doubling_h": 0.394, "growth_tmp": 37.0, "optimum_tmp": 36.16, "optimum_ph": 6.363, "genome_size": 3641163.5, "gc_content": 42.852, "coding_genes": 3283.347, "rRNA16S_genes": 6.0, "tRNA_genes": 63.727, "gram_stain": 0.885, "sporulation": 0.414, "motility": 0.448, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.988, "aerobic_respiration": 0.011, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.8, "coccus_cell_shape": 0.133, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.033, "vibrio_cell_shape": 0.033, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__JAILFK01", "s__JAILFK01 sp017634455" ], "_genome_taxon": [ "Lachnospiraceae", "bacterium", "d__Bacteria", "p__Bacillota_A", "c__Clostridia", "o__Lachnospirales", "f__Lachnospiraceae", "g__JAILFK01", "s__JAILFK01 sp017634455", "Bacteria", "Bacillota", "A", "Clostridia", "Lachnospirales", "Lachnospiraceae", "JAILFK01", "JAILFK01", "sp017634455" ], "_meo": [ { "id": "MEO_0000046", "label": "rumen" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }