{ "type": "genome", "identifier": "GCA_947566735.1", "organism": "Lactobacillus gasseri", "title": "Lactobacillus gasseri", "description": "contaminated; derived from metagenome; genome length too small", "data type": "Genome sequencing and assembly", "organization": "EMG", "publication": [ {} ], "properties": { "assembly_accession": "GCA_947566735.1", "bioproject": "PRJEB57839", "biosample": "SAMEA112228073", "wgs_master": "CANOKH000000000.1", "refseq_category": "na", "taxid": "1596", "species_taxid": "1596", "organism_name": "Lactobacillus gasseri", "infraspecific_name": "", "isolate": "SRR13921778_bin.52_metawrap_v1.3_MAG", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/12/13", "asm_name": "SRR13921778_bin.52_metawrap_v1.3_MAG", "submitter": "EMG", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/947/566/735/GCA_947566735.1_SRR13921778_bin.52_metawrap_v1.3_MAG", "excluded_from_refseq": "contaminated; derived from metagenome; genome length too small", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-12-13", "dateModified": "2022-12-13", "datePublished": "2022-12-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Lactobacillus gasseri" ], "sample_taxid": [ "1596" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "0.360 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 47.92, "contamination": 4.17, "strain_heterogeneity": 100.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1270205", "Number of Sequences": "62", "Longest Sequences (bp)": "279101", "N50 (bp)": "58815", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "34.1", "Number of CDSs": "1228", "Average Protein Length": "296.9", "Coding Ratio (%)": "86.1", "Number of rRNAs": "0", "Number of tRNAs": "25", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lactobacillus johnsonii", "strain": "strain=ATCC 33200", "accession": "GCA_001433975.1", "taxid": 33959, "species_taxid": 33959, "relation_to_type": "type", "validated": true, "ani": 96.199, "matched_fragments": 305, "total_fragments": 395, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactobacillus johnsonii", "strain": "strain=ATCC 33200", "accession": "GCA_000159355.1", "taxid": 33959, "species_taxid": 33959, "relation_to_type": "type", "validated": true, "ani": 96.1665, "matched_fragments": 305, "total_fragments": 395, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lactobacillus taiwanensis", "strain": "strain=DSM 21401", "accession": "GCA_001436695.1", "taxid": 508451, "species_taxid": 508451, "relation_to_type": "type", "validated": true, "ani": 87.4276, "matched_fragments": 291, "total_fragments": 395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus gasseri", "strain": "strain=ATCC 33323", "accession": "GCA_000014425.1", "taxid": 1596, "species_taxid": 1596, "relation_to_type": "type", "validated": true, "ani": 85.5481, "matched_fragments": 276, "total_fragments": 395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus paragasseri", "strain": "strain=JCM 5343", "accession": "GCA_003307275.1", "taxid": 2107999, "species_taxid": 2107999, "relation_to_type": "type", "validated": true, "ani": 85.5365, "matched_fragments": 291, "total_fragments": 395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus gasseri", "strain": "strain=NCTC13722", "accession": "GCA_900452355.1", "taxid": 1596, "species_taxid": 1596, "relation_to_type": "type", "validated": true, "ani": 85.4013, "matched_fragments": 284, "total_fragments": 395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus gasseri", "strain": "strain=ATCC 33323", "accession": "GCA_008868295.1", "taxid": 1596, "species_taxid": 1596, "relation_to_type": "type", "validated": true, "ani": 85.3661, "matched_fragments": 290, "total_fragments": 395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus colini", "strain": "strain=DSM 101872", "accession": "GCA_017874575.1", "taxid": 1819254, "species_taxid": 1819254, "relation_to_type": "type", "validated": true, "ani": 79.0703, "matched_fragments": 108, "total_fragments": 395, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lactobacillus ultunensis", "strain": "strain=DSM 16047", "accession": "GCA_001436305.1", "taxid": 227945, "species_taxid": 227945, "relation_to_type": "type", "validated": true, "ani": 78.7651, "matched_fragments": 77, "total_fragments": 395, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 47.92, "contamination": 4.17, "strain_heterogeneity": 100.0 }, "gtdb_result": [ { "accession": "GCF_000159355.1", "gtdb_species": "s__Lactobacillus johnsonii", "ani": 96.1665, "matched_fragments": 305, "total_fragments": 395, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.89", "min_intra_species_ani": "95.28", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.57", "num_clustered_genomes": 61, "status": "inconclusive" }, { "accession": "GCA_910589175.1", "gtdb_species": "s__Lactobacillus sp910589175", "ani": 95.422, "matched_fragments": 308, "total_fragments": 395, "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": "inconclusive" }, { "accession": "GCA_910589675.1", "gtdb_species": "s__Lactobacillus sp910589675", "ani": 93.7223, "matched_fragments": 179, "total_fragments": 395, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.72", "min_intra_species_ani": "97.13", "mean_intra_species_af": "0.73", "min_intra_species_af": "0.71", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_001436695.1", "gtdb_species": "s__Lactobacillus taiwanensis", "ani": 87.4276, "matched_fragments": 291, "total_fragments": 395, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.80", "min_intra_species_ani": "98.01", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.86", "num_clustered_genomes": 31, "status": "-" }, { "accession": "GCF_003584685.1", "gtdb_species": "s__Lactobacillus paragasseri", "ani": 85.5868, "matched_fragments": 290, "total_fragments": 395, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.70", "min_intra_species_ani": "97.96", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.84", "num_clustered_genomes": 40, "status": "-" }, { "accession": "GCF_000014425.1", "gtdb_species": "s__Lactobacillus gasseri", "ani": 85.5481, "matched_fragments": 276, "total_fragments": 395, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Lactobacillaceae;g__Lactobacillus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.12", "min_intra_species_ani": "96.79", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.86", "num_clustered_genomes": 41, "status": "-" }, { "accession": "GCF_017874575.1", "gtdb_species": "s__Lactobacillus colini", "ani": 79.0703, "matched_fragments": 108, "total_fragments": 395, "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_001436305.1", "gtdb_species": "s__Lactobacillus ultunensis", "ani": 78.7651, "matched_fragments": 77, "total_fragments": 395, "gtdb_taxonomy": 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"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 sp947171515" ], "_genome_taxon": [ "Lactobacillus", "gasseri", "d__Bacteria", "p__Bacillota", "c__Bacilli", "o__Lactobacillales", "f__Lactobacillaceae", "g__Lactobacillus", "s__Lactobacillus sp947171515", "Bacteria", "Bacillota", "Bacilli", "Lactobacillales", "Lactobacillaceae", "Lactobacillus", "Lactobacillus", "sp947171515" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }