{ "type": "genome", "identifier": "GCA_001439135.1", "organism": "Rhodobacter sp. BACL10 MAG-120419-bin15", "title": "Rhodobacter sp. BACL10 MAG-120419-bin15", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Kungliga Tekniska Hogskolan", "publication": [ {} ], "properties": { "assembly_accession": "GCA_001439135.1", "bioproject": "PRJNA273799", "biosample": "SAMN03741990", "wgs_master": "LICP00000000.1", "refseq_category": "na", "taxid": "1655557", "species_taxid": "1655557", "organism_name": "Rhodobacter sp. BACL10 MAG-120419-bin15", "infraspecific_name": "", "isolate": "BACL10 MAG-120419-bin15", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/11/06", "asm_name": "ASM143913v1", "submitter": "Kungliga Tekniska Hogskolan", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/001/439/135/GCA_001439135.1_ASM143913v1", "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": "2015-11-06", "dateModified": "2015-11-06", "datePublished": "2015-11-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Rhodobacter sp. BACL10 MAG-120419-bin15" ], "sample_taxid": [ "1655557" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Baltic Sea" ], "sample_host_location_id": [], "data_size": "0.807 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": 44.0, "max": 44.0 }, "completeness": 100.0, "contamination": 17.13, "strain_heterogeneity": 50.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2834045", "Number of Sequences": "765", "Longest Sequences (bp)": "35069", "N50 (bp)": "5688", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "50.5", "Number of CDSs": "2228", "Average Protein Length": "285.2", "Coding Ratio (%)": "67.3", "Number of rRNAs": "0", "Number of tRNAs": "29", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudorhodobacter wandonensis", "strain": "strain=KCTC 23672", "accession": "GCA_001202035.1", "taxid": 1120568, "species_taxid": 1120568, "relation_to_type": "type", "validated": true, "ani": 76.3727, "matched_fragments": 51, "total_fragments": 550, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 17.13, "strain_heterogeneity": 50.0 }, "gtdb_result": [ { "accession": "GCA_003536295.1", "gtdb_species": "s__UBA10365 sp003536295", "ani": 97.6627, "matched_fragments": 307, "total_fragments": 550, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__UBA10365", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.23", "min_intra_species_ani": "97.66", "mean_intra_species_af": "0.75", "min_intra_species_af": "0.66", "num_clustered_genomes": 6, "status": "conclusive" }, { "accession": "GCF_000420745.1", "gtdb_species": "s__Pseudorhodobacter ferrugineus", "ani": 76.5442, "matched_fragments": 50, "total_fragments": 550, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudorhodobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001202035.1", "gtdb_species": "s__Pseudorhodobacter wandonensis", "ani": 76.3279, "matched_fragments": 50, "total_fragments": 550, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudorhodobacter", "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_005234135.1", "gtdb_species": "s__Pseudorhodobacter turbinis", "ani": 76.1996, "matched_fragments": 58, "total_fragments": 550, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Pseudorhodobacter", "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": -0.102, "cell_length": 0.166, "doubling_h": 0.531, "growth_tmp": 28.333, "optimum_tmp": 30.312, "optimum_ph": 6.9, "genome_size": 4127409.974, "gc_content": 66.914, "coding_genes": 3782.589, "rRNA16S_genes": 3.9, "tRNA_genes": 50.925, "gram_stain": 0.0, "sporulation": 0.2, "motility": 0.625, "range_salinity": 0.0, "facultative_respiration": 0.333, "anaerobic_respiration": 0.333, "aerobic_respiration": 0.333, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.5, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.5, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Rhodobacterales", "f__Rhodobacteraceae", "g__UBA10365", "s__UBA10365 sp003536295" ], "_genome_taxon": [ "Rhodobacter", "sp.", "BACL10", "MAG-120419-bin15", "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Rhodobacterales", "f__Rhodobacteraceae", "g__UBA10365", "s__UBA10365 sp003536295", "Bacteria", "Pseudomonadota", "Alphaproteobacteria", "Rhodobacterales", "Rhodobacteraceae", "UBA10365", "UBA10365", "sp003536295" ], "_meo": [ { "id": "MEO_0000041", "label": "marine water" } ], "quality": 2, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f" }