{ "type": "genome", "identifier": "GCA_903913515.1", "organism": "uncultured Acetobacteraceae bacterium", "title": "uncultured Acetobacteraceae bacterium", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "BILS", "publication": [ {} ], "properties": { "assembly_accession": "GCA_903913515.1", "bioproject": "PRJEB38681", "biosample": "SAMEA6947018", "wgs_master": "CAIWLO000000000.1", "refseq_category": "na", "taxid": "169975", "species_taxid": "169975", "organism_name": "uncultured Acetobacteraceae bacterium", "infraspecific_name": "", "isolate": "Umea3p2_bin-1373", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/19", "asm_name": "freshwater MAG --- Umea3p2_bin-1373", "submitter": "BILS", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/903/913/515/GCA_903913515.1_freshwater_MAG_---_Umea3p2_bin-1373", "excluded_from_refseq": "derived from environmental source; derived from metagenome", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-19", "dateModified": "2020-07-19", "datePublished": "2020-07-19", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Acetobacteraceae bacterium" ], "sample_taxid": [ "169975" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Sweden" ], "sample_host_location_id": [], "data_size": "1.056 MB", "sample_ph_range": { "min": 476.0, "max": 476.0 }, "sample_temperature_range": { "min": 43.0, "max": 43.0 }, "completeness": 49.31, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "3731031", "Number of Sequences": "1240", "Longest Sequences (bp)": "20519", "N50 (bp)": "3238", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "64.4", "Number of CDSs": "2609", "Average Protein Length": "275.6", "Coding Ratio (%)": "57.8", "Number of rRNAs": "0", "Number of tRNAs": "25", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rhodopila globiformis", "strain": "strain=DSM 161", "accession": "GCA_002937115.1", "taxid": 1071, "species_taxid": 1071, "relation_to_type": "type", "validated": true, "ani": 77.1669, "matched_fragments": 153, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovastum atsumiense", "strain": "strain=G2-11", "accession": "GCA_937425535.1", "taxid": 504468, "species_taxid": 504468, "relation_to_type": "type", "validated": true, "ani": 76.886, "matched_fragments": 78, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidisphaera rubrifaciens", "strain": "strain=HS-AP3", "accession": "GCA_000964365.1", "taxid": 50715, "species_taxid": 50715, "relation_to_type": "type", "validated": true, "ani": 76.7319, "matched_fragments": 52, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseomonas wenyumeiae", "strain": "strain=Z23", "accession": "GCA_003696345.1", "taxid": 2478470, "species_taxid": 2478470, "relation_to_type": "type", "validated": true, "ani": 76.4078, "matched_fragments": 52, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodovarius crocodyli", "strain": "strain=CCP-6", "accession": "GCA_004005855.1", "taxid": 1979269, "species_taxid": 1979269, "relation_to_type": "type", "validated": true, "ani": 76.2552, "matched_fragments": 59, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseomonas vastitatis", "strain": "strain=CPCC 101021", "accession": "GCA_003604215.1", "taxid": 2307076, "species_taxid": 2307076, "relation_to_type": "type", "validated": true, "ani": 76.1137, "matched_fragments": 58, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseomonas rhizosphaerae", "strain": "strain=YW11", "accession": "GCA_002631185.1", "taxid": 1335062, "species_taxid": 1335062, "relation_to_type": "type", "validated": true, "ani": 76.1049, "matched_fragments": 65, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseomonas oryzicola", "strain": "strain=KCTC 22478", "accession": "GCA_012163135.1", "taxid": 535904, "species_taxid": 535904, "relation_to_type": "type", "validated": true, "ani": 76.056, "matched_fragments": 71, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseomonas hellenica", "strain": "strain=LMG 31523", "accession": "GCA_018129085.1", "taxid": 2687306, "species_taxid": 2687306, "relation_to_type": "type", "validated": true, "ani": 75.9464, "matched_fragments": 65, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseomonas aerophila", "strain": "strain=NBRC 108923", "accession": "GCA_014490485.1", "taxid": 1224513, "species_taxid": 1224513, "relation_to_type": "type", "validated": true, "ani": 75.8949, "matched_fragments": 61, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseomonas alkaliterrae", "strain": "strain=DSM 25895", "accession": "GCA_014199195.1", "taxid": 1452450, "species_taxid": 1452450, "relation_to_type": "type", "validated": true, "ani": 75.7535, "matched_fragments": 61, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseomonas arctica", "strain": "strain=LMG 28251", "accession": "GCA_018128965.1", "taxid": 1509237, "species_taxid": 1509237, "relation_to_type": "type", "validated": true, "ani": 75.7133, "matched_fragments": 62, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Falsiroseomonas tokyonensis", "strain": "strain=K-20", "accession": "GCA_019024325.1", "taxid": 430521, "species_taxid": 430521, "relation_to_type": "type", "validated": true, "ani": 75.6896, "matched_fragments": 73, "total_fragments": 544, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 49.31, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_903877125.1", "gtdb_species": "s__CAIXEA01 sp903877125", "ani": 99.8468, "matched_fragments": 520, "total_fragments": 544, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__CAIXEA01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.92", "min_intra_species_ani": "99.92", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_903924985.1", "gtdb_species": "s__CAIXEA01 sp903924985", "ani": 79.6199, "matched_fragments": 318, "total_fragments": 544, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__CAIXEA01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.91", "min_intra_species_ani": "99.91", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_903895595.1", "gtdb_species": "s__CAIXEA01 sp903895595", "ani": 78.9969, "matched_fragments": 324, "total_fragments": 544, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__CAIXEA01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.85", "min_intra_species_ani": 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"num_clustered_genomes": 1, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.17, "cell_length": 0.155, "doubling_h": 0.614, "growth_tmp": 28.985, "optimum_tmp": 29.179, "optimum_ph": 6.239, "genome_size": 3819566.29, "gc_content": 59.366, "coding_genes": 3194.615, "rRNA16S_genes": 3.921, "tRNA_genes": 55.256, "gram_stain": 0.0, "sporulation": 0.046, "motility": 0.618, "range_salinity": 0.0, "facultative_respiration": 0.011, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.988, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.711, "coccus_cell_shape": 0.152, "filament_cell_shape": 0.016, "coccobacillus_cell_shape": 0.118, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Acetobacterales", "f__Acetobacteraceae", "g__Rhodopila", "s__Rhodopila sp903877125" ], "_genome_taxon": [ "uncultured", "Acetobacteraceae", "bacterium", "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Acetobacterales", "f__Acetobacteraceae", "g__Rhodopila", "s__Rhodopila sp903877125", "Bacteria", "Pseudomonadota", "Alphaproteobacteria", "Acetobacterales", "Acetobacteraceae", "Rhodopila", "Rhodopila", "sp903877125" ], "_meo": [ { "id": "MEO_0000038", "label": "freshwater" }, { "id": "MEO_0000024", "label": "lake" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }