{ "type": "genome", "identifier": "GCA_943789155.1", "organism": "uncultured Planktomarina sp.", "title": "uncultured Planktomarina sp.", "description": "derived from environmental source; derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Max Planck Institute for Marine Microbiology", "publication": [ {} ], "properties": { "assembly_accession": "GCA_943789155.1", "bioproject": "PRJEB52999", "biosample": "SAMEA110055939", "wgs_master": "CALSTA000000000.1", "refseq_category": "na", "taxid": "1538529", "species_taxid": "1538529", "organism_name": "uncultured Planktomarina sp.", "infraspecific_name": "", "isolate": "AH_MB235_1", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/11/27", "asm_name": "15042020_METABAT_235_1", "submitter": "Max Planck Institute for Marine Microbiology", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/943/789/155/GCA_943789155.1_15042020_METABAT_235_1", "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": "2022-11-27", "dateModified": "2022-11-27", "datePublished": "2022-11-27", "_annotation": { "sample_count": 1, "sample_organism": [ "uncultured Planktomarina sp." ], "sample_taxid": [ "1538529" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "North Sea" ], "sample_host_location_id": [], "data_size": "0.597 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 75.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "2091187", "Number of Sequences": "16", "Longest Sequences (bp)": "591048", "N50 (bp)": "280598", "Gap Ratio (%)": "0.004782", "GCcontent (%)": "53.2", "Number of CDSs": "2081", "Average Protein Length": "296.5", "Coding Ratio (%)": "88.5", "Number of rRNAs": "4", "Number of tRNAs": "35", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Planktomarina temperata", "strain": "strain=RCA23", "accession": "GCA_000738435.1", "taxid": 1284658, "species_taxid": 1284658, "relation_to_type": "type", "validated": true, "ani": 86.8328, "matched_fragments": 579, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nereida ignava", "strain": "strain=DSM 16309", "accession": "GCA_900114125.1", "taxid": 282199, "species_taxid": 282199, "relation_to_type": "type", "validated": true, "ani": 76.8874, "matched_fragments": 53, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nereida ignava", "strain": "strain=CECT 5292", "accession": "GCA_001049735.1", "taxid": 282199, "species_taxid": 282199, "relation_to_type": "type", "validated": true, "ani": 76.854, "matched_fragments": 53, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nereida ignava", "strain": "strain=CECT 5292", "accession": "GCA_001404155.1", "taxid": 282199, "species_taxid": 282199, "relation_to_type": "type", "validated": true, "ani": 76.854, "matched_fragments": 53, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseobacter cerasinus", "strain": "strain=AI77", "accession": "GCA_009811755.1", "taxid": 2602289, "species_taxid": 2602289, "relation_to_type": "type", "validated": true, "ani": 76.75, "matched_fragments": 56, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ruegeria pomeroyi", "strain": "strain=DSS-3", "accession": "GCA_000011965.2", "taxid": 89184, "species_taxid": 89184, "relation_to_type": "suspected-type", "validated": true, "ani": 76.684, "matched_fragments": 50, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter indolifex", "strain": "strain=DSM 14862", "accession": "GCA_022788655.1", "taxid": 225422, "species_taxid": 225422, "relation_to_type": "type", "validated": true, "ani": 76.6765, "matched_fragments": 51, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter brevis", "strain": "strain=DSM 11443", "accession": "GCA_900112755.1", "taxid": 74348, "species_taxid": 74348, "relation_to_type": "type", "validated": true, "ani": 76.5619, "matched_fragments": 53, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseovarius lutimaris", "strain": "strain=DSM 28463", "accession": "GCA_900115165.1", "taxid": 1005928, "species_taxid": 1005928, "relation_to_type": "type", "validated": true, "ani": 76.483, "matched_fragments": 55, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shimia marina", "strain": "strain=DSM 26895", "accession": "GCA_900112745.1", "taxid": 321267, "species_taxid": 321267, "relation_to_type": "type", "validated": true, "ani": 76.342, "matched_fragments": 58, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shimia marina", "strain": "strain=CECT 7688", "accession": "GCA_001458175.1", "taxid": 321267, "species_taxid": 321267, "relation_to_type": "type", "validated": true, "ani": 76.342, "matched_fragments": 58, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter mediterraneus", "strain": "strain=DSM 12244", "accession": "GCA_003054325.1", "taxid": 83219, "species_taxid": 83219, "relation_to_type": "type", "validated": true, "ani": 76.2949, "matched_fragments": 53, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aestuariivita boseongensis", "strain": "strain=BS-B2", "accession": "GCA_001262635.1", "taxid": 1470562, "species_taxid": 1470562, "relation_to_type": "type", "validated": true, "ani": 76.2444, "matched_fragments": 56, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter dubius", "strain": "strain=DSM 16472", "accession": "GCA_900113435.1", "taxid": 218673, "species_taxid": 218673, "relation_to_type": "type", "validated": true, "ani": 76.1662, "matched_fragments": 57, "total_fragments": 688, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 75.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCA_905181815.1", "gtdb_species": "s__Planktomarina sp905181815", "ani": 86.845, "matched_fragments": 536, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Planktomarina", "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_000738435.1", "gtdb_species": "s__Planktomarina temperata", "ani": 86.8328, "matched_fragments": 579, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Planktomarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.99", "min_intra_species_ani": "97.76", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.80", "num_clustered_genomes": 20, "status": "-" }, { "accession": "GCA_016780825.1", "gtdb_species": "s__Planktomarina sp016780825", "ani": 86.2564, "matched_fragments": 486, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Planktomarina", "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_002683685.1", "gtdb_species": "s__Planktomarina sp002683685", "ani": 84.9925, "matched_fragments": 374, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Planktomarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.59", "min_intra_species_ani": "95.45", "mean_intra_species_af": "0.70", "min_intra_species_af": "0.67", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCA_000981705.1", "gtdb_species": "s__Planktomarina sp000981705", "ani": 77.8078, "matched_fragments": 131, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Planktomarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.80", "min_intra_species_ani": "98.80", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_905182195.1", "gtdb_species": "s__Planktomarina sp905182195", "ani": 77.8037, "matched_fragments": 132, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Planktomarina", "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_905182455.1", "gtdb_species": "s__Planktomarina sp905182455", "ani": 77.7831, "matched_fragments": 189, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Planktomarina", "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_002080415.1", "gtdb_species": "s__Roseovarius mucosus_A", "ani": 76.5626, "matched_fragments": 56, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Roseovarius", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.86", "min_intra_species_ani": "96.11", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.79", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_001262635.1", "gtdb_species": "s__Aestuariivita boseongensis", "ani": 76.2444, "matched_fragments": 56, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Aestuariivita", "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_005938225.1", "gtdb_species": "s__Arenibacterium halophilum", "ani": 76.1121, "matched_fragments": 53, "total_fragments": 688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Arenibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.35", "min_intra_species_ani": "96.35", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_gtdb_taxon": [ "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Rhodobacterales", "f__Rhodobacteraceae", "g__Planktomarina", "s__Planktomarina sp022425445" ], "_genome_taxon": [ "uncultured", "Planktomarina", "sp.", "d__Bacteria", "p__Pseudomonadota", "c__Alphaproteobacteria", "o__Rhodobacterales", "f__Rhodobacteraceae", "g__Planktomarina", "s__Planktomarina sp022425445", "Bacteria", "Pseudomonadota", "Alphaproteobacteria", "Rhodobacterales", "Rhodobacteraceae", "Planktomarina", "Planktomarina", "sp022425445" ], "_meo": [ { "id": "MEO_0000041", "label": "marine water" } ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }