{ "type": "genome", "identifier": "GCA_946477065.1", "organism": "uncultured Lactobacillus sp.", "title": "uncultured Lactobacillus sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "EMG", "publication": [ {} ], "properties": { "assembly_accession": "GCA_946477065.1", "bioproject": "PRJEB55158", "biosample": "SAMEA110697479", "wgs_master": "CAMKWT000000000.1", "refseq_category": "na", "taxid": "153152", "species_taxid": "153152", "organism_name": "uncultured Lactobacillus sp.", "infraspecific_name": "", "isolate": "SRR10914161_bin.2_metawrap_v1.3.0_MAG", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/09/12", "asm_name": "SRR10914161_bin.2_metawrap_v1.3.0_MAG", "submitter": "EMG", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/946/477/065/GCA_946477065.1_SRR10914161_bin.2_metawrap_v1.3.0_MAG", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-09-12", "dateModified": "2022-09-12", "datePublished": "2022-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Lactobacillus sp." ], "sample_taxid": [ "153152" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China" ], "sample_host_location_id": [], "data_size": "0.590 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": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2082378", "Number of Sequences": "37", "Longest Sequences (bp)": "353880", "N50 (bp)": "115023", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "35.7", "Number of CDSs": "2036", "Average Protein Length": "300.0", "Coding Ratio (%)": "88.0", "Number of rRNAs": "0", "Number of tRNAs": "24", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lactobacillus laiwuensis", "strain": "strain=F551-2", "accession": "GCA_019972835.1", "taxid": 2841034, "species_taxid": 2841034, "relation_to_type": "type", "validated": true, "ani": 84.6838, "matched_fragments": 460, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus huangpiensis", "strain": "strain=F306-1", "accession": "GCA_019972815.1", "taxid": 2799571, "species_taxid": 2799571, "relation_to_type": "type", "validated": true, "ani": 83.8171, "matched_fragments": 424, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus apis", "strain": "strain=CCM 8403", "accession": "GCA_014635365.1", "taxid": 303541, "species_taxid": 303541, "relation_to_type": "type", "validated": true, "ani": 79.38, "matched_fragments": 219, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus apis", "strain": "strain=LMG 26964", "accession": "GCA_002837055.1", "taxid": 303541, "species_taxid": 303541, "relation_to_type": "type", "validated": true, "ani": 79.3631, "matched_fragments": 197, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus bombicola", "strain": "strain=H70-3", "accession": "GCA_002916915.1", "taxid": 1505723, "species_taxid": 1505723, "relation_to_type": "type", "validated": true, "ani": 78.886, "matched_fragments": 180, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus bombicola", "strain": "strain=R-53102", "accession": "GCA_900112665.1", "taxid": 1505723, "species_taxid": 1505723, "relation_to_type": "type", "validated": true, "ani": 78.8825, "matched_fragments": 181, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus amylolyticus", "strain": "strain=DSM 11664", "accession": "GCA_004354545.1", "taxid": 83683, "species_taxid": 83683, "relation_to_type": "type", "validated": true, "ani": 78.077, "matched_fragments": 86, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus amylolyticus", "strain": "strain=DSM 11664", "accession": "GCA_001435665.1", "taxid": 83683, "species_taxid": 83683, "relation_to_type": "type", "validated": true, "ani": 78.0244, "matched_fragments": 82, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus xujianguonis", "strain": "strain=HT111-2", "accession": "GCA_004009905.1", "taxid": 2495899, "species_taxid": 2495899, "relation_to_type": "type", "validated": true, "ani": 77.9042, "matched_fragments": 92, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus crispatus", "strain": "strain=DSM 20584", "accession": "GCA_001434005.1", "taxid": 47770, "species_taxid": 47770, "relation_to_type": "type", "validated": true, "ani": 77.8626, "matched_fragments": 102, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus acetotolerans", "strain": "strain=DSM 20749", "accession": "GCA_001436775.1", "taxid": 1600, "species_taxid": 1600, "relation_to_type": "type", "validated": true, "ani": 77.7999, "matched_fragments": 122, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus crispatus", "strain": "strain=NCK2488", "accession": "GCA_008694755.1", "taxid": 47770, "species_taxid": 47770, "relation_to_type": "type", "validated": true, "ani": 77.7843, "matched_fragments": 105, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus acetotolerans", "strain": "strain=JCM 3825", "accession": "GCA_014648715.1", "taxid": 1600, "species_taxid": 1600, "relation_to_type": "type", "validated": true, "ani": 77.7238, "matched_fragments": 126, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus helveticus", "strain": "strain=CGMCC 1.1877", "accession": "GCA_001434945.1", "taxid": 1587, "species_taxid": 1587, "relation_to_type": "type", "validated": true, "ani": 77.4853, "matched_fragments": 99, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus rodentium", "strain": "strain=DSM 24759", "accession": "GCA_024622425.1", "taxid": 947835, "species_taxid": 947835, "relation_to_type": "type", "validated": true, "ani": 77.4482, "matched_fragments": 62, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus gigeriorum", "strain": "strain=DSM 23908", "accession": "GCA_001436575.1", "taxid": 1203069, "species_taxid": 1203069, "relation_to_type": "type", "validated": true, "ani": 77.3022, "matched_fragments": 95, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus gigeriorum", "strain": "strain=type strain: CRBIP 24.85", "accession": "GCA_000296855.1", "taxid": 1203069, "species_taxid": 1203069, "relation_to_type": "type", "validated": true, "ani": 77.2638, "matched_fragments": 97, "total_fragments": 673, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013346935.1", "gtdb_species": "s__Lactobacillus melliventris", "ani": 94.1792, "matched_fragments": 553, "total_fragments": 673, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.75", "min_intra_species_ani": "96.46", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.86", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_000970755.1", "gtdb_species": "s__Lactobacillus kimbladii_A", "ani": 84.6431, "matched_fragments": 462, "total_fragments": 673, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "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_000967195.1", "gtdb_species": "s__Lactobacillus kullabergensis", "ani": 84.62, "matched_fragments": 458, "total_fragments": 673, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.65", "min_intra_species_ani": "96.49", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_014323605.1", "gtdb_species": "s__Lactobacillus kimbladii_B", "ani": 84.2357, "matched_fragments": 427, "total_fragments": 673, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "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_016100975.1", "gtdb_species": "s__Lactobacillus sp016100975", "ani": 84.137, "matched_fragments": 445, "total_fragments": 673, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000760615.1", "gtdb_species": "s__Lactobacillus sp000760615", "ani": 83.8592, "matched_fragments": 449, "total_fragments": 673, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.94", "min_intra_species_ani": "96.94", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000970855.1", "gtdb_species": "s__Lactobacillus helsingborgensis", "ani": 83.4187, "matched_fragments": 405, "total_fragments": 673, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.65", "min_intra_species_ani": "97.05", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_002916935.1", "gtdb_species": "s__Lactobacillus panisapium", "ani": 79.6041, "matched_fragments": 227, "total_fragments": 673, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "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": -0.148, "cell_length": 0.354, "doubling_h": -0.086, "growth_tmp": 32.808, "optimum_tmp": 31.646, "optimum_ph": 6.027, "genome_size": 2295637.558, "gc_content": 40.393, "coding_genes": 2119.007, "rRNA16S_genes": 5.074, "tRNA_genes": 63.614, "gram_stain": 1.0, "sporulation": 0.009, "motility": 0.08, "range_salinity": 0.0, "facultative_respiration": 0.155, "anaerobic_respiration": 0.175, "aerobic_respiration": 0.668, "mesophilic_range_tmp": 0.977, "thermophilic_range_tmp": 0.022, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.983, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.016, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacillota", "c__Bacilli", "o__Lactobacillales", "f__Lactobacillaceae", "g__Lactobacillus", "s__Lactobacillus sp945290125" ], "_genome_taxon": [ "uncultured", "Lactobacillus", "sp.", "d__Bacteria", "p__Bacillota", "c__Bacilli", "o__Lactobacillales", "f__Lactobacillaceae", "g__Lactobacillus", "s__Lactobacillus sp945290125", "Bacteria", "Bacillota", "Bacilli", "Lactobacillales", "Lactobacillaceae", "Lactobacillus", "Lactobacillus", "sp945290125" ], "_meo": [ { "id": "MEO_0000468", "label": "gut" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }