{ "type": "genome", "identifier": "GCA_947855975.1", "organism": "Streptococcus alactolyticus", "title": "Streptococcus alactolyticus", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Institut National pour la Recherche Agronomique (FRANCE)", "publication": [ {} ], "properties": { "assembly_accession": "GCA_947855975.1", "bioproject": "PRJEB53667", "biosample": "SAMEA112285542", "wgs_master": "CANUBN000000000.1", "refseq_category": "na", "taxid": "29389", "species_taxid": "29389", "organism_name": "Streptococcus alactolyticus", "infraspecific_name": "", "isolate": "dsm_us_coassembly__bin70", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/01/09", "asm_name": "dsm_us_coassembly__bin70", "submitter": "Institut National pour la Recherche Agronomique (FRANCE)", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/947/855/975/GCA_947855975.1_dsm_us_coassembly_bin70", "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": "2023-01-09", "dateModified": "2023-01-09", "datePublished": "2023-01-09", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptococcus alactolyticus" ], "sample_taxid": [ "29389" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "0.448 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)": "1565857", "Number of Sequences": "93", "Longest Sequences (bp)": "109533", "N50 (bp)": "27991", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "40.6", "Number of CDSs": "1525", "Average Protein Length": "291.1", "Coding Ratio (%)": "85.0", "Number of rRNAs": "0", "Number of tRNAs": "13", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptococcus infantarius", "strain": "strain=NCTC13760", "accession": "GCA_900459445.1", "taxid": 102684, "species_taxid": 102684, "relation_to_type": "type", "validated": true, "ani": 81.9186, "matched_fragments": 279, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus infantarius", "strain": "strain=FDAARGOS_1019", "accession": "GCA_016127275.1", "taxid": 102684, "species_taxid": 102684, "relation_to_type": "type", "validated": true, "ani": 81.8728, "matched_fragments": 283, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus lutetiensis", "strain": "strain=FDAARGOS_1018", "accession": "GCA_016403165.1", "taxid": 150055, "species_taxid": 150055, "relation_to_type": "type", "validated": true, "ani": 81.7763, "matched_fragments": 290, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus infantarius subsp. infantarius", "strain": "strain=ATCC BAA-102", "accession": "GCA_000154985.1", "taxid": 150054, "species_taxid": 102684, "relation_to_type": "type", "validated": true, "ani": 81.717, "matched_fragments": 280, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus lutetiensis", "strain": "strain=FDAARGOS_1158", "accession": "GCA_016725165.1", "taxid": 150055, "species_taxid": 150055, "relation_to_type": "type", "validated": true, "ani": 81.7154, "matched_fragments": 287, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus lutetiensis", "strain": "strain=NCTC13774", "accession": "GCA_900475675.1", "taxid": 150055, "species_taxid": 150055, "relation_to_type": "type", "validated": true, "ani": 81.6853, "matched_fragments": 289, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus gallolyticus subsp. gallolyticus", "strain": "strain=DSM 16831", "accession": "GCA_002000985.1", "taxid": 53354, "species_taxid": 315405, "relation_to_type": "type", "validated": true, "ani": 81.6107, "matched_fragments": 312, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus gallolyticus", "strain": "strain=NCTC13773", "accession": "GCA_900475715.1", "taxid": 315405, "species_taxid": 315405, "relation_to_type": "suspected-type", "validated": true, "ani": 81.5238, "matched_fragments": 311, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus vicugnae", "strain": "strain=SL1232", "accession": "GCA_016461705.1", "taxid": 2740579, "species_taxid": 2740579, "relation_to_type": "type", "validated": true, "ani": 81.1282, "matched_fragments": 277, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus equinus", "strain": "strain=NCTC12969", "accession": "GCA_900459295.1", "taxid": 1335, "species_taxid": 1335, "relation_to_type": "type", "validated": true, "ani": 81.0818, "matched_fragments": 285, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus equinus", "strain": "strain=ATCC 9812", "accession": "GCA_000187265.1", "taxid": 1335, "species_taxid": 1335, "relation_to_type": "type", "validated": true, "ani": 81.0349, "matched_fragments": 283, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus parasuis", "strain": "strain=SUT-286", "accession": "GCA_021654455.1", "taxid": 1501662, "species_taxid": 1501662, "relation_to_type": "suspected-type", "validated": true, "ani": 78.3856, "matched_fragments": 84, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus halichoeri", "strain": "strain=CCUG48324", "accession": "GCA_009870755.1", "taxid": 254785, "species_taxid": 254785, "relation_to_type": "type", "validated": true, "ani": 78.2485, "matched_fragments": 73, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptococcus uberis", "strain": "strain=NCTC3858", "accession": "GCA_900475595.1", "taxid": 1349, "species_taxid": 1349, "relation_to_type": "type", "validated": true, "ani": 78.1069, "matched_fragments": 99, "total_fragments": 482, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_012277075.1", "gtdb_species": "s__Streptococcus alactolyticus", "ani": 99.4123, "matched_fragments": 451, "total_fragments": 482, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.29", "min_intra_species_ani": "98.88", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.83", "num_clustered_genomes": 11, "status": "conclusive" }, { "accession": "GCF_000154985.1", "gtdb_species": "s__Streptococcus infantarius", "ani": 81.7005, "matched_fragments": 281, "total_fragments": 482, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.67", "min_intra_species_ani": "95.30", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.82", "num_clustered_genomes": 24, "status": "-" }, { "accession": "GCF_900475675.1", "gtdb_species": "s__Streptococcus lutetiensis", "ani": 81.6853, "matched_fragments": 289, "total_fragments": 482, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.21", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.85", "num_clustered_genomes": 50, "status": "-" }, { "accession": "GCF_002000985.1", "gtdb_species": "s__Streptococcus gallolyticus", "ani": 81.6107, "matched_fragments": 312, "total_fragments": 482, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 96.3165, "mean_intra_species_ani": "98.04", "min_intra_species_ani": "96.86", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.79", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCA_000283635.1", "gtdb_species": "s__Streptococcus macedonicus", "ani": 81.4921, "matched_fragments": 299, "total_fragments": 482, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 96.3165, "mean_intra_species_ani": "99.04", "min_intra_species_ani": "98.50", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.83", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_900101445.1", "gtdb_species": "s__Streptococcus equinus_B", "ani": 81.4355, "matched_fragments": 281, "total_fragments": 482, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.02", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_900104225.1", "gtdb_species": "s__Streptococcus equinus_D", "ani": 81.2607, "matched_fragments": 290, "total_fragments": 482, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "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_900478025.1", "gtdb_species": "s__Streptococcus pasteurianus", "ani": 81.1429, "matched_fragments": 322, "total_fragments": 482, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 96.1304, "mean_intra_species_ani": "99.06", "min_intra_species_ani": "98.58", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.84", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCF_016461705.1", "gtdb_species": "s__Streptococcus vicugnae", "ani": 81.1282, "matched_fragments": 277, "total_fragments": 482, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.43", "min_intra_species_ani": "98.30", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_003337175.1", "gtdb_species": "s__Streptococcus gallolyticus_B", "ani": 81.1254, "matched_fragments": 304, "total_fragments": 482, "gtdb_taxonomy": "d__Bacteria;p__Firmicutes;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus", "ani_circumscription_radius": 95.6693, "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": -0.157, "cell_length": -0.167, "doubling_h": -0.216, "growth_tmp": 37.0, "optimum_tmp": 36.284, "optimum_ph": 6.89, "genome_size": 2093253.959, "gc_content": 39.262, "coding_genes": 1944.968, "rRNA16S_genes": 4.791, "tRNA_genes": 62.087, "gram_stain": 1.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": 0.285, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.969, "thermophilic_range_tmp": 0.03, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 0.943, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.056, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Bacillota", "c__Bacilli", "o__Lactobacillales", "f__Streptococcaceae", "g__Streptococcus", "s__Streptococcus faecavium" ], "_genome_taxon": [ "Streptococcus", "alactolyticus", "d__Bacteria", "p__Bacillota", "c__Bacilli", "o__Lactobacillales", "f__Streptococcaceae", "g__Streptococcus", "s__Streptococcus faecavium", "Bacteria", "Bacillota", "Bacilli", "Lactobacillales", "Streptococcaceae", "Streptococcus", "Streptococcus", "faecavium" ], "_meo": [ { "id": "MEO_0000460", "label": "cecum" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }