{ "type": "genome", "identifier": "GCA_002359455.1", "organism": "Enterococcaceae bacterium UBA2657", "title": "Enterococcaceae bacterium UBA2657", "description": "derived from metagenome; genus undefined", "data type": "Genome sequencing and assembly", "organization": "University of Queensland", "publication": [ {} ], "properties": { "assembly_accession": "GCA_002359455.1", "bioproject": "PRJNA348753", "biosample": "SAMN06452824", "wgs_master": "DEMZ00000000.1", "refseq_category": "na", "taxid": "1951729", "species_taxid": "1951729", "organism_name": "Enterococcaceae bacterium UBA2657", "infraspecific_name": "", "isolate": "UBA2657", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/09/26", "asm_name": "ASM235945v1", "submitter": "University of Queensland", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/002/359/455/GCA_002359455.1_ASM235945v1", "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": "2017-09-26", "dateModified": "2017-09-26", "datePublished": "2017-09-26", "_annotation": { "sample_count": 1, "sample_organism": [ "Enterococcaceae bacterium UBA2657" ], "sample_taxid": [ "1951729" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA:New York City" ], "sample_host_location_id": [], "data_size": "0.839 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 92.08, "contamination": 1.39, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2933525", "Number of Sequences": "141", "Longest Sequences (bp)": "112758", "N50 (bp)": "30726", "Gap Ratio (%)": "0.489957", "GCcontent (%)": "43.0", "Number of CDSs": "3116", "Average Protein Length": "259.5", "Coding Ratio (%)": "82.7", "Number of rRNAs": "0", "Number of tRNAs": "12", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Enterococcus casseliflavus", "strain": "strain=FDAARGOS_1120", "accession": "GCA_016727345.1", "taxid": 37734, "species_taxid": 37734, "relation_to_type": "type", "validated": true, "ani": 95.6522, "matched_fragments": 819, "total_fragments": 911, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus casseliflavus", "strain": "strain=NBRC 100478", "accession": "GCA_001544095.1", "taxid": 37734, "species_taxid": 37734, "relation_to_type": "type", "validated": true, "ani": 95.642, "matched_fragments": 804, "total_fragments": 911, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus casseliflavus", "strain": "strain=DSM 20680", "accession": "GCA_001885845.1", "taxid": 37734, "species_taxid": 37734, "relation_to_type": "type", "validated": true, "ani": 95.6205, "matched_fragments": 812, "total_fragments": 911, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus casseliflavus", "strain": "strain=NCTC12361", "accession": "GCA_900447665.1", "taxid": 37734, "species_taxid": 37734, "relation_to_type": "type", "validated": true, "ani": 95.5863, "matched_fragments": 825, "total_fragments": 911, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Enterococcus gallinarum", "strain": "strain=DSM 24841", "accession": "GCA_001886155.1", "taxid": 1353, "species_taxid": 1353, "relation_to_type": "suspected-type", "validated": true, "ani": 79.4027, "matched_fragments": 349, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus lactis", "strain": "strain=CCM 8412", "accession": "GCA_015751045.1", "taxid": 357441, "species_taxid": 357441, "relation_to_type": "type", "validated": true, "ani": 77.7625, "matched_fragments": 97, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus hirae", "strain": "strain=ATCC 9790", "accession": "GCA_000271405.2", "taxid": 1354, "species_taxid": 1354, "relation_to_type": "type", "validated": true, "ani": 77.4733, "matched_fragments": 90, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus dispar", "strain": "strain=DSM 6630", "accession": "GCA_001886105.1", "taxid": 44009, "species_taxid": 44009, "relation_to_type": "type", "validated": true, "ani": 77.4453, "matched_fragments": 82, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus saigonensis", "strain": "strain=VE80", "accession": "GCA_011397115.1", "taxid": 1805431, "species_taxid": 1805431, "relation_to_type": "type", "validated": true, "ani": 77.3507, "matched_fragments": 70, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus larvae", "strain": "strain=BWM-S5", "accession": "GCA_017830045.1", "taxid": 2794352, "species_taxid": 2794352, "relation_to_type": "type", "validated": true, "ani": 76.8176, "matched_fragments": 71, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterococcus aquimarinus", "strain": "strain=DSM 17690", "accession": "GCA_001885765.1", "taxid": 328396, "species_taxid": 328396, "relation_to_type": "type", "validated": true, "ani": 76.8, "matched_fragments": 75, "total_fragments": 911, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 92.08, "contamination": 1.39, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001544095.1", "gtdb_species": "s__Enterococcus_D casseliflavus", "ani": 95.642, "matched_fragments": 804, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.00", "min_intra_species_ani": "95.35", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.83", "num_clustered_genomes": 83, "status": "inconclusive" }, { "accession": "GCF_002850555.1", "gtdb_species": "s__Enterococcus_D sp002850555", "ani": 95.4652, "matched_fragments": 847, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.34", "min_intra_species_ani": "95.31", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.74", "num_clustered_genomes": 46, "status": "inconclusive" }, { "accession": "GCF_002140915.1", "gtdb_species": "s__Enterococcus_D sp002140915", "ani": 79.9362, "matched_fragments": 401, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_D", "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_001297065.1", "gtdb_species": "s__Enterococcus_D sp001297065", "ani": 79.7559, "matched_fragments": 421, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.01", "min_intra_species_ani": "96.72", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.84", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001544275.1", "gtdb_species": "s__Enterococcus_D gallinarum", "ani": 79.3922, "matched_fragments": 346, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.60", "min_intra_species_ani": "97.23", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.80", "num_clustered_genomes": 74, "status": "-" }, { "accession": "GCF_017426705.1", "gtdb_species": "s__Enterococcus_F sp017426705", "ani": 77.8069, "matched_fragments": 107, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_F", "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_013394305.1", "gtdb_species": "s__Enterococcus_B pernyi", "ani": 77.693, "matched_fragments": 122, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 96.3614, "mean_intra_species_ani": "98.21", "min_intra_species_ani": "97.00", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.84", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCF_017316305.1", "gtdb_species": "s__Enterococcus_B sp017316305", "ani": 77.6706, "matched_fragments": 119, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_B", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.83", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.91", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_011397115.1", "gtdb_species": "s__Enterococcus_C saigonensis", "ani": 77.3507, "matched_fragments": 70, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_C", "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_017316025.1", "gtdb_species": "s__Enterococcus_C sp017316025", "ani": 77.3319, "matched_fragments": 83, "total_fragments": 911, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus_C", "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": -0.089, "cell_length": -0.064, "doubling_h": -0.346, "growth_tmp": 35.447, "optimum_tmp": 33.241, "optimum_ph": 8.456, "genome_size": 3001067.636, "gc_content": 37.486, "coding_genes": 2695.043, "rRNA16S_genes": 5.333, "tRNA_genes": 61.238, "gram_stain": 1.0, "sporulation": 0.045, "motility": 0.023, "range_salinity": 1.0, "facultative_respiration": 0.218, "anaerobic_respiration": 0.015, "aerobic_respiration": 0.765, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.046, "coccus_cell_shape": 0.837, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.116, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacillota", "c__Bacilli", "o__Lactobacillales", "f__Enterococcaceae", "g__Enterococcus_D", "s__Enterococcus_D innesii" ], "_genome_taxon": [ "Enterococcaceae", "bacterium", "UBA2657", "d__Bacteria", "p__Bacillota", "c__Bacilli", "o__Lactobacillales", "f__Enterococcaceae", "g__Enterococcus_D", "s__Enterococcus_D innesii", "Bacteria", "Bacillota", "Bacilli", "Lactobacillales", "Enterococcaceae", "Enterococcus", "D", "Enterococcus", "D", "innesii" ], "_meo": [ { "id": "MEO_0000837", "label": "human activity associated" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }