{ "type": "genome", "identifier": "GCA_945830045.1", "organism": "Veillonella caviae", "title": "Veillonella caviae", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "EMG", "publication": [ {} ], "properties": { "assembly_accession": "GCA_945830045.1", "bioproject": "PRJEB52643", "biosample": "SAMEA110360190", "wgs_master": "CALZXB000000000.1", "refseq_category": "na", "taxid": "248316", "species_taxid": "248316", "organism_name": "Veillonella caviae", "infraspecific_name": "", "isolate": "SRR5240729_bin.4_metaWRAP_v1.3_MAG", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/09/11", "asm_name": "SRR5240729_bin.4_metaWRAP_v1.3_MAG", "submitter": "EMG", "gbrs_paired_asm": "GCF_945830045.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/945/830/045/GCA_945830045.1_SRR5240729_bin.4_metaWRAP_v1.3_MAG", "excluded_from_refseq": "derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-09-11", "dateModified": "2022-09-11", "datePublished": "2022-09-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Veillonella caviae" ], "sample_taxid": [ "248316" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Germany" ], "sample_host_location_id": [], "data_size": "0.517 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)": "1806615", "Number of Sequences": "60", "Longest Sequences (bp)": "95842", "N50 (bp)": "42325", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "38.4", "Number of CDSs": "1641", "Average Protein Length": "316.3", "Coding Ratio (%)": "86.2", "Number of rRNAs": "0", "Number of tRNAs": "35", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Veillonella caviae", "strain": "strain=DSM 20738", "accession": "GCA_003992125.1", "taxid": 248316, "species_taxid": 248316, "relation_to_type": "type", "validated": true, "ani": 98.576, "matched_fragments": 522, "total_fragments": 576, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Veillonella atypica", "strain": "strain=ATCC 17744", "accession": "GCA_002959915.1", "taxid": 39777, "species_taxid": 39777, "relation_to_type": "type", "validated": true, "ani": 81.3755, "matched_fragments": 328, "total_fragments": 576, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Veillonella atypica", "strain": "strain=NCTC11830", "accession": "GCA_900460235.1", "taxid": 39777, "species_taxid": 39777, "relation_to_type": "type", "validated": true, "ani": 81.2347, "matched_fragments": 337, "total_fragments": 576, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Veillonella atypica", "strain": "strain=KON", "accession": "GCA_000318355.2", "taxid": 39777, "species_taxid": 39777, "relation_to_type": "type", "validated": true, "ani": 81.2061, "matched_fragments": 326, "total_fragments": 576, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Veillonella tobetsuensis", "strain": "strain=ATCC BAA-2400", "accession": "GCA_001078375.1", "taxid": 1110546, "species_taxid": 1110546, "relation_to_type": "type", "validated": true, "ani": 81.0448, "matched_fragments": 336, "total_fragments": 576, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Veillonella nakazawae", "strain": "strain=T1-7", "accession": "GCA_013393365.1", "taxid": 2682456, "species_taxid": 2682456, "relation_to_type": "type", "validated": true, "ani": 80.7462, "matched_fragments": 320, "total_fragments": 576, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Veillonella dispar", "strain": "strain=ATCC 17748", "accession": "GCA_000160015.1", "taxid": 39778, "species_taxid": 39778, "relation_to_type": "suspected-type", "validated": true, "ani": 80.713, "matched_fragments": 308, "total_fragments": 576, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Veillonella dispar", "strain": "strain=NCTC11831", "accession": "GCA_900637515.1", "taxid": 39778, "species_taxid": 39778, "relation_to_type": "suspected-type", "validated": true, "ani": 80.6735, "matched_fragments": 309, "total_fragments": 576, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Veillonella infantium", "strain": "strain=T11011-4", "accession": "GCA_002959895.1", "taxid": 1911679, "species_taxid": 1911679, "relation_to_type": "type", "validated": true, "ani": 80.5267, "matched_fragments": 306, "total_fragments": 576, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Veillonella rogosae", "strain": "strain=JCM 15642", "accession": "GCA_002959775.1", "taxid": 423477, "species_taxid": 423477, "relation_to_type": "type", "validated": true, "ani": 80.323, "matched_fragments": 310, "total_fragments": 576, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Veillonella rogosae", "strain": "strain=JCM 15642", "accession": "GCA_001312485.1", "taxid": 423477, "species_taxid": 423477, "relation_to_type": "type", "validated": true, "ani": 80.114, "matched_fragments": 293, "total_fragments": 576, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003992125.1", "gtdb_species": "s__Veillonella caviae", "ani": 98.576, "matched_fragments": 522, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.44", "min_intra_species_ani": "98.44", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_002959915.1", "gtdb_species": "s__Veillonella atypica", "ani": 81.3755, "matched_fragments": 328, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.10", "min_intra_species_ani": "95.19", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.87", "num_clustered_genomes": 34, "status": "-" }, { "accession": "GCF_001078375.1", "gtdb_species": "s__Veillonella tobetsuensis", "ani": 81.0253, "matched_fragments": 337, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.55", "min_intra_species_ani": "97.11", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.91", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_013393365.1", "gtdb_species": "s__Veillonella nakazawae", "ani": 80.7462, "matched_fragments": 320, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.23", "min_intra_species_ani": "95.05", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.87", "num_clustered_genomes": 33, "status": "-" }, { "accession": "GCA_905214495.1", "gtdb_species": "s__Veillonella sp905214495", "ani": 80.6761, "matched_fragments": 265, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "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_900637515.1", "gtdb_species": "s__Veillonella dispar", "ani": 80.6735, "matched_fragments": 309, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.54", "min_intra_species_ani": "95.48", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.91", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCA_900538355.1", "gtdb_species": "s__Veillonella sp900538355", "ani": 80.5723, "matched_fragments": 304, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "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_003463825.1", "gtdb_species": "s__Veillonella sp003463825", "ani": 80.5692, "matched_fragments": 291, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.70", "min_intra_species_ani": "95.41", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002959755.1", "gtdb_species": "s__Veillonella sp002959755", "ani": 80.5545, "matched_fragments": 306, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "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_002959895.1", "gtdb_species": "s__Veillonella infantium", "ani": 80.5267, "matched_fragments": 306, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.95", "min_intra_species_ani": "95.95", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_900552445.1", "gtdb_species": "s__Veillonella sp900552445", "ani": 80.4955, "matched_fragments": 169, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.10", "min_intra_species_ani": "97.10", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002959775.1", "gtdb_species": "s__Veillonella rogosae", "ani": 80.323, "matched_fragments": 310, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.92", "min_intra_species_ani": "95.91", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 12, "status": "-" }, { "accession": "GCA_900549845.1", "gtdb_species": "s__Veillonella sp900549845", "ani": 80.1967, "matched_fragments": 221, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "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_905209685.1", "gtdb_species": "s__Veillonella sp905209685", "ani": 79.8833, "matched_fragments": 240, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.07", "min_intra_species_ani": "95.07", "mean_intra_species_af": "0.78", "min_intra_species_af": "0.78", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_018367495.1", "gtdb_species": "s__Veillonella sp018367495", "ani": 79.4025, "matched_fragments": 267, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "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_902834965.1", "gtdb_species": "s__Veillonella sp902834965", "ani": 79.3949, "matched_fragments": 156, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella", "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_900545795.1", "gtdb_species": "s__Veillonella_A sp900545795", "ani": 77.3429, "matched_fragments": 91, "total_fragments": 576, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes_C;c__Negativicutes;o__Veillonellales;f__Veillonellaceae;g__Veillonella_A", "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": -0.353, "cell_length": -0.362, "doubling_h": null, "growth_tmp": 37.0, "optimum_tmp": 36.714, "optimum_ph": 7.0, "genome_size": 2104897.156, "gc_content": 40.198, "coding_genes": 1805.666, "rRNA16S_genes": 4.0, "tRNA_genes": 48.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 1.0, "aerobic_respiration": 0.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacillota_C", "c__Negativicutes", "o__Veillonellales", "f__Veillonellaceae", "g__Veillonella", "s__Veillonella caviae" ], "_genome_taxon": [ "Veillonella", "caviae", "d__Bacteria", "p__Bacillota_C", "c__Negativicutes", "o__Veillonellales", "f__Veillonellaceae", "g__Veillonella", "s__Veillonella caviae", "Bacteria", "Bacillota", "C", "Negativicutes", "Veillonellales", "Veillonellaceae", "Veillonella", "Veillonella", "caviae" ], "_meo": [ { "id": "MEO_0000054", "label": "feces" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }