{ "type": "genome", "identifier": "GCF_025060895.1", "organism": "Stieleria sedimenti", "title": "Stieleria sedimenti", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Faculty of Sciencies of University of Porto- LEMUP", "publication": [ {} ], "properties": { "assembly_accession": "GCF_025060895.1", "bioproject": "PRJNA224116", "biosample": "SAMN30613402", "wgs_master": "JANZKV000000000.1", "refseq_category": "reference genome", "taxid": "2976331", "species_taxid": "2976331", "organism_name": "Stieleria sedimenti", "infraspecific_name": "strain=ICT_E10.1", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/09/07", "asm_name": "ASM2506089v1", "asm_submitter": "Faculty of Sciencies of University of Porto- LEMUP", "gbrs_paired_asm": "GCA_025060895.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/025/060/895/GCF_025060895.1_ASM2506089v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "9813311", "genome_size_ungapped": "9811021", "gc_percent": "59.000000", "replicon_count": "0", "scaffold_count": "404", "contig_count": "404", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_025060895.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "6883", "protein_coding_gene_count": "6714", "non_coding_gene_count": "95", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-09-07", "dateModified": "2022-09-07", "datePublished": "2022-09-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Stieleria sedimenti" ], "sample_taxid": [ "2976331" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Portugal: Alcochete" ], "sample_host_location_id": [], "data_size": "2.766 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "9813311", "Number of Sequences": "404", "Longest Sequences (bp)": "207851", "N50 (bp)": "44614", "Gap Ratio (%)": "0.024936", "GCcontent (%)": "58.8", "Number of CDSs": "6897", "Average Protein Length": "400.8", "Coding Ratio (%)": "84.5", "Number of rRNAs": "3", "Number of tRNAs": "109", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Stieleria neptunia", "strain": "strain=Enr13", "accession": "GCA_007754155.1", "taxid": 2527979, "species_taxid": 2527979, "relation_to_type": "type", "validated": true, "ani": 89.1037, "matched_fragments": 2463, "total_fragments": 3074, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stieleria maiorica", "strain": "strain=Mal15", "accession": "GCA_008035925.1", "taxid": 2795974, "species_taxid": 2795974, "relation_to_type": "type", "validated": true, "ani": 81.0745, "matched_fragments": 1797, "total_fragments": 3074, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseiconus nitratireducens", "strain": "strain=JC645", "accession": "GCA_008629675.1", "taxid": 2605748, "species_taxid": 2605748, "relation_to_type": "type", "validated": true, "ani": 77.403, "matched_fragments": 564, "total_fragments": 3074, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Stieleria varia", "strain": "strain=Pla52n", "accession": "GCA_007860045.1", "taxid": 2528005, "species_taxid": 2528005, "relation_to_type": "type", "validated": true, "ani": 77.3461, "matched_fragments": 350, "total_fragments": 3074, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodopirellula bahusiensis", "strain": "strain=SWK21", "accession": "GCA_002727185.1", "taxid": 2014065, "species_taxid": 2014065, "relation_to_type": "type", "validated": true, "ani": 77.2828, "matched_fragments": 247, "total_fragments": 3074, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseiconus lacunae", "strain": "strain=JC635", "accession": "GCA_008312935.1", "taxid": 2605694, "species_taxid": 2605694, "relation_to_type": "type", "validated": true, "ani": 77.199, "matched_fragments": 369, "total_fragments": 3074, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodopirellula maiorica", "strain": "strain=SM1", "accession": "GCA_000346295.1", "taxid": 1265734, "species_taxid": 1265734, "relation_to_type": "type", "validated": true, "ani": 76.9937, "matched_fragments": 234, "total_fragments": 3074, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodopirellula europaea", "strain": "strain=6C", "accession": "GCA_000338295.1", "taxid": 1263866, "species_taxid": 1263866, "relation_to_type": "type", "validated": true, "ani": 76.9064, "matched_fragments": 230, "total_fragments": 3074, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubripirellula reticaptiva", "strain": "strain=Poly59", "accession": "GCA_007860175.1", "taxid": 2528013, "species_taxid": 2528013, "relation_to_type": "type", "validated": true, "ani": 76.6202, "matched_fragments": 238, "total_fragments": 3074, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces flavovariabilis", "strain": "strain=NRRL B-16367", "accession": "GCA_000725785.1", "taxid": 284031, "species_taxid": 284031, "relation_to_type": "type", "validated": true, "ani": 74.5471, "matched_fragments": 57, "total_fragments": 3074, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002289565.1", "gtdb_species": "s__Stieleria sp002289565", "ani": 92.467, "matched_fragments": 2437, "total_fragments": 3074, "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": "-" }, { "accession": "GCA_007753675.1", "gtdb_species": "s__Stieleria sp007753675", "ani": 91.6536, "matched_fragments": 2515, "total_fragments": 3074, "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": "-" }, { "accession": "GCF_007754155.1", "gtdb_species": "s__Stieleria neptunia", "ani": 89.1222, "matched_fragments": 2460, "total_fragments": 3074, "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": "-" }, { "accession": "GCF_014154935.1", "gtdb_species": "s__Stieleria sp014154935", "ani": 81.3272, "matched_fragments": 1848, "total_fragments": 3074, "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": "-" }, { "accession": "GCF_008035925.1", "gtdb_species": "s__Stieleria maiorica", "ani": 81.0873, "matched_fragments": 1792, "total_fragments": 3074, "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": "-" }, { "accession": "GCF_007859915.1", "gtdb_species": "s__Rhodopirellula pilleata", "ani": 77.0723, "matched_fragments": 250, "total_fragments": 3074, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Pirellulaceae;g__Rhodopirellula", "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_002422955.1", "gtdb_species": "s__UBA6163 sp002422955", "ani": 75.989, "matched_fragments": 142, "total_fragments": 3074, "gtdb_taxonomy": "d__Bacteria;p__Planctomycetota;c__Planctomycetia;o__Pirellulales;f__Pirellulaceae;g__UBA6163", "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": 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 }, "_genome_taxon": [ "Stieleria", "sedimenti" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }