{ "type": "genome", "identifier": "GCA_003504375.1", "organism": "Erythrobacter sp.", "title": "Erythrobacter sp.", "description": "derived from metagenome; fragmented assembly", "data type": "Genome sequencing and assembly", "organization": "University of Queensland", "publication": [ {} ], "properties": { "assembly_accession": "GCA_003504375.1", "bioproject": "PRJNA417962", "biosample": "SAMN08018938", "wgs_master": "DOAH00000000.1", "refseq_category": "na", "taxid": "1042", "species_taxid": "1042", "organism_name": "Erythrobacter sp.", "infraspecific_name": "", "isolate": "UBA9697", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/09/07", "asm_name": "ASM350437v1", "submitter": "University of Queensland", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/003/504/375/GCA_003504375.1_ASM350437v1", "excluded_from_refseq": "derived from metagenome; fragmented assembly", "relation_to_type_material": "", "asm_not_live_date": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-09-07", "dateModified": "2018-09-07", "datePublished": "2018-09-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Erythrobacter sp." ], "sample_taxid": [ "1042" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "0.471 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 58.97, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "1892818", "Number of Sequences": "283", "Longest Sequences (bp)": "25364", "N50 (bp)": "7895", "Gap Ratio (%)": "12.082989", "GCcontent (%)": "65.4", "Number of CDSs": "1216", "Average Protein Length": "228.5", "Coding Ratio (%)": "44.0", "Number of rRNAs": "0", "Number of tRNAs": "27", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Qipengyuania flava", "strain": "strain=DSM 16421", "accession": "GCA_011762005.1", "taxid": 192812, "species_taxid": 192812, "relation_to_type": "type", "validated": true, "ani": 84.6508, "matched_fragments": 430, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania proteolytica", "strain": "strain=6B39", "accession": "GCA_019711565.1", "taxid": 2867239, "species_taxid": 2867239, "relation_to_type": "type", "validated": true, "ani": 81.7879, "matched_fragments": 371, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania qiaonensis", "strain": "strain=6D47A", "accession": "GCA_019711515.1", "taxid": 2867240, "species_taxid": 2867240, "relation_to_type": "type", "validated": true, "ani": 81.7207, "matched_fragments": 376, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania xiamenensis", "strain": "strain=1XM1-15A", "accession": "GCA_019711495.1", "taxid": 2867237, "species_taxid": 2867237, "relation_to_type": "type", "validated": true, "ani": 81.2209, "matched_fragments": 327, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania aurantiaca", "strain": "strain=1NDH13", "accession": "GCA_019711375.1", "taxid": 2867233, "species_taxid": 2867233, "relation_to_type": "type", "validated": true, "ani": 81.2041, "matched_fragments": 343, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania gaetbuli", "strain": "strain=DSM 16225", "accession": "GCA_009827315.1", "taxid": 266952, "species_taxid": 266952, "relation_to_type": "type", "validated": true, "ani": 81.1451, "matched_fragments": 360, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania sphaerica", "strain": "strain=GH29", "accession": "GCA_019711595.1", "taxid": 2867243, "species_taxid": 2867243, "relation_to_type": "type", "validated": true, "ani": 81.1071, "matched_fragments": 325, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania aerophila", "strain": "strain=GH25", "accession": "GCA_019711555.1", "taxid": 2867242, "species_taxid": 2867242, "relation_to_type": "type", "validated": true, "ani": 81.1, "matched_fragments": 336, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania pacifica", "strain": "strain=NZ-96", "accession": "GCA_019857205.1", "taxid": 2860199, "species_taxid": 2860199, "relation_to_type": "type", "validated": true, "ani": 81.0211, "matched_fragments": 333, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania gelatinilytica", "strain": "strain=1NDH1", "accession": "GCA_019711315.1", "taxid": 2867231, "species_taxid": 2867231, "relation_to_type": "type", "validated": true, "ani": 80.9411, "matched_fragments": 338, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania xiapuensis", "strain": "strain=1NDW9", "accession": "GCA_019711395.1", "taxid": 2867236, "species_taxid": 2867236, "relation_to_type": "type", "validated": true, "ani": 80.906, "matched_fragments": 347, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania huizhouensis", "strain": "strain=YG19", "accession": "GCA_019711635.1", "taxid": 2867245, "species_taxid": 2867245, "relation_to_type": "type", "validated": true, "ani": 80.0955, "matched_fragments": 289, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Qipengyuania pelagi", "strain": "strain=JCM 17468", "accession": "GCA_009827295.1", "taxid": 994320, "species_taxid": 994320, "relation_to_type": "type", "validated": true, "ani": 80.0477, "matched_fragments": 334, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pelagerythrobacter rhizovicinus", "strain": "strain=AY-3R", "accession": "GCA_004135625.1", "taxid": 2268576, "species_taxid": 2268576, "relation_to_type": "type", "validated": true, "ani": 79.3756, "matched_fragments": 288, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium arvoryzae", "strain": "strain=KCTC 32422", "accession": "GCA_014652615.1", "taxid": 1256514, "species_taxid": 1256514, "relation_to_type": "type", "validated": true, "ani": 78.5208, "matched_fragments": 218, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Novosphingobium aquimarinum", "strain": "strain=M24A2M", "accession": "GCA_009746585.1", "taxid": 2682494, "species_taxid": 2682494, "relation_to_type": "type", "validated": true, "ani": 77.9915, "matched_fragments": 204, "total_fragments": 491, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 58.97, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009828015.1", "gtdb_species": "s__Qipengyuania citrea", "ani": 98.4945, "matched_fragments": 468, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.91", "min_intra_species_ani": "97.49", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.80", "num_clustered_genomes": 20, "status": "conclusive" }, { "accession": "GCA_016764075.1", "gtdb_species": "s__Qipengyuania sp016764075", "ani": 85.6049, "matched_fragments": 346, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "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_011762005.1", "gtdb_species": "s__Qipengyuania flava", "ani": 84.6508, "matched_fragments": 430, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.04", "min_intra_species_ani": "96.57", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.85", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_001542855.1", "gtdb_species": "s__Qipengyuania sp001542855", "ani": 83.081, "matched_fragments": 403, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.07", "min_intra_species_ani": "97.03", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_003355455.1", "gtdb_species": "s__Qipengyuania aurea", "ani": 82.2006, "matched_fragments": 387, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.67", "min_intra_species_ani": "97.64", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.82", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_015767595.1", "gtdb_species": "s__Qipengyuania sp002895025", "ani": 81.1105, "matched_fragments": 344, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.29", "min_intra_species_ani": "96.55", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.78", "num_clustered_genomes": 16, "status": "-" }, { "accession": "GCF_015529805.1", "gtdb_species": "s__Qipengyuania soli", "ani": 80.7655, "matched_fragments": 332, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "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_000756795.1", "gtdb_species": "s__Qipengyuania vulgaris_A", "ani": 80.5012, "matched_fragments": 328, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "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_013260645.1", "gtdb_species": "s__Qipengyuania mangrovi", "ani": 80.355, "matched_fragments": 319, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "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_013001165.1", "gtdb_species": "s__Qipengyuania sp013001165", "ani": 80.3397, "matched_fragments": 285, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "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_003248395.1", "gtdb_species": "s__Qipengyuania sp003248395", "ani": 79.8013, "matched_fragments": 280, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "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_018819685.1", "gtdb_species": "s__Qipengyuania sp018819685", "ani": 79.3806, "matched_fragments": 241, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Qipengyuania", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.48", "min_intra_species_ani": "99.48", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.85", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004135625.1", "gtdb_species": "s__Pelagerythrobacter rhizovicinus", "ani": 79.3694, "matched_fragments": 289, "total_fragments": 491, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Sphingomonadales;f__Sphingomonadaceae;g__Pelagerythrobacter", "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": -0.343, "cell_length": 0.193, "doubling_h": null, "growth_tmp": 28.375, "optimum_tmp": 28.388, "optimum_ph": 7.464, "genome_size": 3027217.49, "gc_content": 62.412, "coding_genes": 2905.766, "rRNA16S_genes": 1.25, "tRNA_genes": 45.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.125, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "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__Sphingomonadales", "f__Sphingomonadaceae", "g__Qipengyuania", "s__Qipengyuania citrea" ], "_genome_taxon": [ "Erythrobacter", "sp.", "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Sphingomonadales", "f__Sphingomonadaceae", "g__Qipengyuania", "s__Qipengyuania citrea", "Bacteria", "Pseudomonadota", "Alphaproteobacteria", "Sphingomonadales", "Sphingomonadaceae", "Qipengyuania", "Qipengyuania", "citrea" ], "_meo": [ { "id": "MEO_0000023", "label": "sea" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }