{ "type": "genome", "identifier": "GCA_012728855.1", "organism": "Rhodopirellula sp.", "title": "Rhodopirellula sp.", "description": "derived from metagenome", "data type": "Genome sequencing and assembly", "organization": "Technical University of Denmark", "publication": [ {} ], "properties": { "assembly_accession": "GCA_012728855.1", "bioproject": "PRJNA602310", "biosample": "SAMN13893731", "wgs_master": "JAAYEH000000000.1", "refseq_category": "na", "taxid": "2024855", "species_taxid": "2024855", "organism_name": "Rhodopirellula sp.", "infraspecific_name": "", "isolate": "AS06rmzACSIP_8", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/04/23", "asm_name": "ASM1272885v1", "submitter": "Technical University of Denmark", "gbrs_paired_asm": "na", "paired_asm_comp": "na", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/012/728/855/GCA_012728855.1_ASM1272885v1", "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": "2020-04-23", "dateModified": "2020-04-23", "datePublished": "2020-04-23", "_annotation": { "sample_count": 1, "sample_organism": [ "Rhodopirellula sp." ], "sample_taxid": [ "2024855" ], "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": "3.207 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 50.0, "genome_count": 1 }, "data_type": "MAG", "data_source": "INSDC", "_dfast": { "Total Sequence Length (bp)": "11311919", "Number of Sequences": "721", "Longest Sequences (bp)": "173491", "N50 (bp)": "35893", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "61.9", "Number of CDSs": "8279", "Average Protein Length": "358.8", "Coding Ratio (%)": "78.8", "Number of rRNAs": "1", "Number of tRNAs": "103", "Number of CRISPRs": "12" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudobythopirellula maris", "strain": "strain=Mal64", "accession": "GCA_007859945.1", "taxid": 2527991, "species_taxid": 2527991, "relation_to_type": "type", "validated": true, "ani": 75.6999, "matched_fragments": 116, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pirellulimonas nuda", "strain": "strain=Pla175", "accession": "GCA_007750855.1", "taxid": 2528009, "species_taxid": 2528009, "relation_to_type": "type", "validated": true, "ani": 75.5702, "matched_fragments": 134, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Posidoniimonas corsicana", "strain": "strain=KOR34", "accession": "GCA_007859765.1", "taxid": 1938618, "species_taxid": 1938618, "relation_to_type": "type", "validated": true, "ani": 75.5328, "matched_fragments": 137, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Posidoniimonas polymericola", "strain": "strain=Pla123a", "accession": "GCA_007859935.1", "taxid": 2528002, "species_taxid": 2528002, "relation_to_type": "type", "validated": true, "ani": 75.4501, "matched_fragments": 152, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lacipirellula limnantheis", "strain": "strain=I41", "accession": "GCA_007746075.1", "taxid": 2528024, "species_taxid": 2528024, "relation_to_type": "type", "validated": true, "ani": 75.4106, "matched_fragments": 106, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aeoliella mucimassa", "strain": "strain=Pan181", "accession": "GCA_007748035.1", "taxid": 2527972, "species_taxid": 2527972, "relation_to_type": "type", "validated": true, "ani": 75.296, "matched_fragments": 50, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Maioricimonas rarisocia", "strain": "strain=Mal4", "accession": "GCA_007747795.1", "taxid": 2528026, "species_taxid": 2528026, "relation_to_type": "type", "validated": true, "ani": 75.2509, "matched_fragments": 103, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lacipirellula parvula", "strain": "strain=PX69", "accession": "GCA_009177095.1", "taxid": 2650471, "species_taxid": 2650471, "relation_to_type": "type", "validated": true, "ani": 75.2186, "matched_fragments": 107, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paludisphaera rhizosphaereae", "strain": "strain=JC665", "accession": "GCA_011065895.1", "taxid": 2711216, "species_taxid": 2711216, "relation_to_type": "type", "validated": true, "ani": 75.0861, "matched_fragments": 136, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tautonia plasticadhaerens", "strain": "strain=ElP", "accession": "GCA_007752535.1", "taxid": 2527974, "species_taxid": 2527974, "relation_to_type": "type", "validated": true, "ani": 75.0693, "matched_fragments": 161, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paludisphaera soli", "strain": "strain=JC670", "accession": "GCA_011064595.1", "taxid": 2712865, "species_taxid": 2712865, "relation_to_type": "type", "validated": true, "ani": 75.0656, "matched_fragments": 139, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseimaritima sediminicola", "strain": "strain=JC651", "accession": "GCA_009618275.1", "taxid": 2662066, "species_taxid": 2662066, "relation_to_type": "type", "validated": true, "ani": 75.054, "matched_fragments": 81, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tautonia sociabilis", "strain": "strain=GM2012", "accession": "GCA_003977685.1", "taxid": 2080755, "species_taxid": 2080755, "relation_to_type": "type", "validated": true, "ani": 74.9855, "matched_fragments": 104, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoroseicyclus tamaricis", "strain": "strain=CLL3-39", "accession": "GCA_010435925.1", "taxid": 2705421, "species_taxid": 2705421, "relation_to_type": "type", "validated": true, "ani": 74.8086, "matched_fragments": 59, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus metallilatus", "strain": "strain=MA1002", "accession": "GCA_004758605.1", "taxid": 1211322, "species_taxid": 1211322, "relation_to_type": "type", "validated": true, "ani": 74.7328, "matched_fragments": 53, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pleomorphomonas diazotrophica", "strain": "strain=R5-392", "accession": "GCA_002844595.1", "taxid": 1166257, "species_taxid": 1166257, "relation_to_type": "type", "validated": true, "ani": 74.7217, "matched_fragments": 52, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pleomorphomonas diazotrophica", "strain": "strain=R5-392", "accession": "GCA_900114935.1", "taxid": 1166257, "species_taxid": 1166257, "relation_to_type": "type", "validated": true, "ani": 74.7207, "matched_fragments": 52, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoroseicyclus tamaricis", "strain": "strain=CLL3-39", "accession": "GCA_012070395.1", "taxid": 2705421, "species_taxid": 2705421, "relation_to_type": "type", "validated": true, "ani": 74.7176, "matched_fragments": 58, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus metallilatus", "strain": "strain=DSM 105434", "accession": "GCA_014202095.1", "taxid": 1211322, "species_taxid": 1211322, "relation_to_type": "type", "validated": true, "ani": 74.6526, "matched_fragments": 53, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kibdelosporangium banguiense", "strain": "strain=DSM 46670", "accession": "GCA_017876405.1", "taxid": 1365924, "species_taxid": 1365924, "relation_to_type": "type", "validated": true, "ani": 74.6305, "matched_fragments": 101, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deinococcus metallilatus", "strain": "strain=MA1002", "accession": "GCA_004115945.1", "taxid": 1211322, "species_taxid": 1211322, "relation_to_type": "type", "validated": true, "ani": 74.6075, "matched_fragments": 52, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia iowensis", "strain": "strain=NRRL 5646", "accession": "GCA_019222765.1", "taxid": 204891, "species_taxid": 204891, "relation_to_type": "type", "validated": true, "ani": 74.5884, "matched_fragments": 83, "total_fragments": 3385, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 8.33, "strain_heterogeneity": 50.0 }, "gtdb_result": [ { "accession": "GCA_012728855.1", "gtdb_species": "s__JABWBD01 sp012728855", "ani": 100.0, "matched_fragments": 3365, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__JABWBD01", "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": "conclusive" }, { "accession": "GCA_013360685.1", "gtdb_species": "s__JABWBD01 sp013360685", "ani": 78.6786, "matched_fragments": 873, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__JABWBD01", "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_012744395.1", "gtdb_species": "s__JAAYCB01 sp012744395", "ani": 76.8912, "matched_fragments": 339, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__JAAYCB01", "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_012719125.1", "gtdb_species": "s__JAAYAY01 sp012719125", "ani": 76.7236, "matched_fragments": 385, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__JAAYAY01", "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_018897395.1", "gtdb_species": "s__JAHIKV01 sp018897395", "ani": 76.2616, "matched_fragments": 167, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__JAHIKV01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.63", "min_intra_species_ani": "99.63", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_011367845.1", "gtdb_species": "s__DSXL01 sp011367845", "ani": 76.199, "matched_fragments": 268, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__DSXL01", "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_016935315.1", "gtdb_species": "s__JAFGRD01 sp016935315", "ani": 76.1935, "matched_fragments": 267, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__JAFGRD01", "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_016936015.1", "gtdb_species": "s__JAFGPV01 sp016936015", "ani": 76.102, "matched_fragments": 194, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__JAFGPV01", "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_007119795.1", "gtdb_species": "s__SKOZ01 sp007119795", "ani": 76.0744, "matched_fragments": 133, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__SKOZ01", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.25", "min_intra_species_ani": "99.25", "mean_intra_species_af": "0.71", "min_intra_species_af": "0.71", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_016931995.1", "gtdb_species": "s__JAFGDS01 sp016931995", "ani": 76.0175, "matched_fragments": 230, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__JAFGDS01", "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_007122045.1", "gtdb_species": "s__PWXP01 sp007122045", "ani": 75.8875, "matched_fragments": 137, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__PWXP01", "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_016928165.1", "gtdb_species": "s__JAHIKV01 sp016928165", "ani": 75.8766, "matched_fragments": 151, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__JAHIKV01", "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_016929515.1", "gtdb_species": "s__UBA11386 sp016929515", "ani": 75.655, "matched_fragments": 110, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__UBA11386", "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_011332595.1", "gtdb_species": "s__DSXM01 sp011332595", "ani": 75.5669, "matched_fragments": 93, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Thermoguttaceae;g__DSXM01", "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_007859935.1", "gtdb_species": "s__Posidoniimonas polymericola", "ani": 75.4679, "matched_fragments": 149, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Lacipirellulaceae;g__Posidoniimonas", "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_017303535.1", "gtdb_species": "s__PNKZ01 sp017303535", "ani": 75.3759, "matched_fragments": 107, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__PNKZ01;g__PNKZ01", "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_003576845.1", "gtdb_species": "s__PLA5 sp003576845", "ani": 75.1765, "matched_fragments": 135, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__PLA5;g__PLA5", "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_016200205.1", "gtdb_species": "s__PALSA-1355 sp016200205", "ani": 75.1182, "matched_fragments": 89, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__PALSA-1355;g__PALSA-1355", "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_017308215.1", "gtdb_species": "s__Urbifossiella sp017308215", "ani": 74.9181, "matched_fragments": 129, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Gemmatales;f__Gemmataceae;g__Urbifossiella", "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_014154935.1", "gtdb_species": "s__Stieleria sp014154935", "ani": 74.7656, "matched_fragments": 82, "total_fragments": 3385, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Pirellulaceae;g__Stieleria", "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": 0.243, "cell_length": 0.243, "doubling_h": 1.0, "growth_tmp": 26.125, "optimum_tmp": 26.571, "optimum_ph": 8.5, "genome_size": 7460929.629, "gc_content": 56.306, "coding_genes": 7325.0, "rRNA16S_genes": 1.0, "tRNA_genes": 76.0, "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": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "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__Planctomycetota", "c__Planctomycetia", "o__Pirellulales", "f__Thermoguttaceae", "g__JABWBD01", "s__JABWBD01 sp012728855" ], "_genome_taxon": [ "Rhodopirellula", "sp.", "d__Bacteria", "p__Planctomycetota", "c__Planctomycetia", "o__Pirellulales", "f__Thermoguttaceae", "g__JABWBD01", "s__JABWBD01 sp012728855", "Bacteria", "Planctomycetota", "Planctomycetia", "Pirellulales", "Thermoguttaceae", "JABWBD01", "JABWBD01", "sp012728855" ], "_meo": [ { "id": "MEO_0001192", "label": "anaerobic digester" } ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }