{ "type": "genome", "identifier": "GCA_004297045.1", "organism": "Bosea sp. (in: a-proteobacteria)", "title": "Bosea sp. (in: a-proteobacteria)", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "University of Oklahoma", "publication": [ {} ], "properties": { "assembly_accession": "GCA_004297045.1", "bioproject": "PRJNA514088", "biosample": "SAMN10720243", "wgs_master": "SCVL00000000.1", "refseq_category": "na", "taxid": "1871050", "species_taxid": "1871050", "organism_name": "Bosea sp. (in: a-proteobacteria)", "infraspecific_name": "", "isolate": "GW715_bin.6", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/02/25", "asm_name": "ASM429704v1", "submitter": "University of Oklahoma", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/004/297/045/GCA_004297045.1_ASM429704v1", "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": "2019-02-25", "dateModified": "2019-02-25", "datePublished": "2019-02-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Bosea sp. (in: a-proteobacteria)" ], "sample_taxid": [ "1871050" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Tennessee" ], "sample_host_location_id": [], "data_size": "1.451 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 99.54, "contamination": 17.76, "strain_heterogeneity": 18.75, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "5254149", "Number of Sequences": "249", "Longest Sequences (bp)": "205256", "N50 (bp)": "57800", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "66.4", "Number of CDSs": "4857", "Average Protein Length": "307.7", "Coding Ratio (%)": "85.3", "Number of rRNAs": "2", "Number of tRNAs": "54", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Bosea thiooxidans", "strain": "strain=DSM 9653", "accession": "GCA_900168195.1", "taxid": 53254, "species_taxid": 53254, "relation_to_type": "type", "validated": true, "ani": 84.8408, "matched_fragments": 986, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bosea robiniae", "strain": "strain=DSM 26672", "accession": "GCA_900102525.1", "taxid": 1036780, "species_taxid": 1036780, "relation_to_type": "type", "validated": true, "ani": 84.7367, "matched_fragments": 989, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bosea caraganae", "strain": "strain=RCAM 04680", "accession": "GCA_003351345.1", "taxid": 2763117, "species_taxid": 2763117, "relation_to_type": "type", "validated": true, "ani": 82.9908, "matched_fragments": 920, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bosea vaviloviae", "strain": "strain=Vaf18", "accession": "GCA_001741865.1", "taxid": 1526658, "species_taxid": 1526658, "relation_to_type": "type", "validated": true, "ani": 82.6883, "matched_fragments": 954, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bosea psychrotolerans", "strain": "strain=1131", "accession": "GCA_002917105.1", "taxid": 1871628, "species_taxid": 1871628, "relation_to_type": "type", "validated": true, "ani": 82.6429, "matched_fragments": 966, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bosea lathyri", "strain": "strain=DSM 26656", "accession": "GCA_900108245.1", "taxid": 1036778, "species_taxid": 1036778, "relation_to_type": "type", "validated": true, "ani": 82.4247, "matched_fragments": 904, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phreatobacter cathodiphilus", "strain": "strain=S-12", "accession": "GCA_003008515.1", "taxid": 1868589, "species_taxid": 1868589, "relation_to_type": "type", "validated": true, "ani": 78.4072, "matched_fragments": 470, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium terricola", "strain": "strain=17Sr1-39", "accession": "GCA_006151805.1", "taxid": 2583531, "species_taxid": 2583531, "relation_to_type": "type", "validated": true, "ani": 78.2142, "matched_fragments": 578, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium nonmethylotrophicum", "strain": "strain=6HR-1", "accession": "GCA_004745635.1", "taxid": 1141884, "species_taxid": 1141884, "relation_to_type": "type", "validated": true, "ani": 78.1801, "matched_fragments": 560, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium oryzihabitans", "strain": "strain=TER-1", "accession": "GCA_004004555.2", "taxid": 2499852, "species_taxid": 2499852, "relation_to_type": "type", "validated": true, "ani": 78.14, "matched_fragments": 542, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Microvirga roseola", "strain": "strain=SM2", "accession": "GCA_020866965.1", "taxid": 2883126, "species_taxid": 2883126, "relation_to_type": "type", "validated": true, "ani": 78.0427, "matched_fragments": 372, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Methylobacterium gnaphalii", "strain": "strain=DSM 24027", "accession": "GCA_022179205.1", "taxid": 1010610, "species_taxid": 1010610, "relation_to_type": "type", "validated": true, "ani": 77.8545, "matched_fragments": 325, "total_fragments": 1628, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 99.54, "contamination": 17.76, "strain_heterogeneity": 18.75 }, "gtdb_result": [ { "accession": "GCF_900156025.1", "gtdb_species": "s__Bosea sp900156025", "ani": 99.075, "matched_fragments": 1259, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.08", "min_intra_species_ani": "99.08", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.82", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_900466745.1", "gtdb_species": "s__Bosea sp900466745", "ani": 85.4715, "matched_fragments": 928, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_000745475.1", "gtdb_species": "s__Bosea vestrisii", "ani": 85.2978, "matched_fragments": 1006, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.16", "min_intra_species_ani": "98.02", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_016428755.1", "gtdb_species": "s__Bosea sp016428755", "ani": 84.8391, "matched_fragments": 975, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "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_900168195.1", "gtdb_species": "s__Bosea thiooxidans", "ani": 84.8389, "matched_fragments": 986, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.77", "min_intra_species_ani": "99.77", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_011764485.1", "gtdb_species": "s__Bosea sp011764485", "ani": 84.7797, "matched_fragments": 989, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "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_001898115.1", "gtdb_species": "s__Bosea sp001898115", "ani": 84.7571, "matched_fragments": 981, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.21", "min_intra_species_ani": "98.43", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900102525.1", "gtdb_species": "s__Bosea robiniae", "ani": 84.7415, "matched_fragments": 987, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.62", "min_intra_species_ani": "97.45", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_008253865.1", "gtdb_species": "s__Bosea sp008253865", "ani": 84.4026, "matched_fragments": 1015, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "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_004144595.1", "gtdb_species": "s__Bosea sp004144595", "ani": 84.3591, "matched_fragments": 887, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "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_900473415.1", "gtdb_species": "s__Bosea sp900473415", "ani": 84.0855, "matched_fragments": 938, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "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_017308015.1", "gtdb_species": "s__Bosea sp017308015", "ani": 83.99, "matched_fragments": 932, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "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_001509835.1", "gtdb_species": "s__Bosea sp001509835", "ani": 82.2118, "matched_fragments": 886, "total_fragments": 1628, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhizobiales;f__Beijerinckiaceae;g__Bosea", "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": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.108, "cell_length": 0.149, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 31.0, "optimum_ph": null, "genome_size": 5737489.625, "gc_content": 65.367, "coding_genes": 6103.0, "rRNA16S_genes": 2.0, "tRNA_genes": 49.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "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__Pseudomonadota", "c__Alphaproteobacteria", "o__Rhizobiales", "f__Beijerinckiaceae", "g__Bosea", "s__Bosea sp900156025" ], "_genome_taxon": [ "Bosea", "sp.", "(in:", "a-proteobacteria)", "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Rhizobiales", "f__Beijerinckiaceae", "g__Bosea", "s__Bosea sp900156025", "Bacteria", "Pseudomonadota", "Alphaproteobacteria", "Rhizobiales", "Beijerinckiaceae", "Bosea", "Bosea", "sp900156025" ], "_meo": [ { "id": "MEO_0000366", "label": "ground water" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }