{ "type": "genome", "identifier": "GCF_013410775.1", "organism": "Sphaerotilus montanus", "title": "Sphaerotilus montanus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013410775.1", "bioproject": "PRJNA224116", "biosample": "SAMN05444840", "wgs_master": "JACCFH000000000.1", "refseq_category": "reference genome", "taxid": "522889", "species_taxid": "522889", "organism_name": "Sphaerotilus montanus", "infraspecific_name": "strain=DSM 21226", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/07/13", "asm_name": "ASM1341077v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_013410775.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/410/775/GCF_013410775.1_ASM1341077v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5068925", "genome_size_ungapped": "5068925", "gc_percent": "68.000000", "replicon_count": "0", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013410775.1-RS_2024_09_19", "annotation_date": "2024-09-19", "total_gene_count": "4565", "protein_coding_gene_count": "4452", "non_coding_gene_count": "69", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-07-13", "dateModified": "2020-07-13", "datePublished": "2020-07-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Sphaerotilus montanus" ], "sample_taxid": [ "522889" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Russia: North Caucasus" ], "sample_host_location_id": [], "data_size": "1.367 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "5068925", "Number of Sequences": "3", "Longest Sequences (bp)": "4833819", "N50 (bp)": "4833819", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.2", "Number of CDSs": "4502", "Average Protein Length": "348.9", "Coding Ratio (%)": "93.0", "Number of rRNAs": "6", "Number of tRNAs": "64", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sphaerotilus montanus", "strain": "strain=DSM 21226", "accession": "GCA_013410775.1", "taxid": 522889, "species_taxid": 522889, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1687, "total_fragments": 1688, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sphaerotilus montanus", "strain": "strain=HS", "accession": "GCA_013426955.1", "taxid": 522889, "species_taxid": 522889, "relation_to_type": "type", "validated": true, "ani": 99.9333, "matched_fragments": 1548, "total_fragments": 1688, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sphaerotilus sulfidivorans", "strain": "strain=D-501", "accession": "GCA_013426975.1", "taxid": 639200, "species_taxid": 639200, "relation_to_type": "type", "validated": true, "ani": 84.4004, "matched_fragments": 1020, "total_fragments": 1688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphaerotilus natans subsp. natans", "strain": "strain=DSM 6575", "accession": "GCA_000689195.1", "taxid": 882627, "species_taxid": 34103, "relation_to_type": "type", "validated": true, "ani": 84.2842, "matched_fragments": 974, "total_fragments": 1688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphaerotilus natans", "strain": "strain=ATCC 13338", "accession": "GCA_900156335.1", "taxid": 34103, "species_taxid": 34103, "relation_to_type": "type", "validated": true, "ani": 84.2074, "matched_fragments": 1027, "total_fragments": 1688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sphaerotilus hippei", "strain": "strain=DSM 566", "accession": "GCA_003201595.1", "taxid": 744406, "species_taxid": 744406, "relation_to_type": "type", "validated": true, "ani": 82.8353, "matched_fragments": 826, "total_fragments": 1688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rubrivivax benzoatilyticus", "strain": "strain=JA2", "accession": "GCA_000190375.2", "taxid": 316997, "species_taxid": 316997, "relation_to_type": "type", "validated": true, "ani": 80.4067, "matched_fragments": 640, "total_fragments": 1688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ideonella dechloratans", "strain": "strain=CCUG 30977", "accession": "GCA_021049305.1", "taxid": 36863, "species_taxid": 36863, "relation_to_type": "type", "validated": true, "ani": 80.3563, "matched_fragments": 626, "total_fragments": 1688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ideonella benzenivorans", "strain": "strain=B7", "accession": "GCA_020387415.1", "taxid": 2831643, "species_taxid": 2831643, "relation_to_type": "type", "validated": true, "ani": 80.2783, "matched_fragments": 580, "total_fragments": 1688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azohydromonas aeria", "strain": "strain=CFCC 13393", "accession": "GCA_009760915.1", "taxid": 2590212, "species_taxid": 2590212, "relation_to_type": "type", "validated": true, "ani": 80.1035, "matched_fragments": 756, "total_fragments": 1688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Azohydromonas australica", "strain": "strain=DSM 1124", "accession": "GCA_000430725.1", "taxid": 364039, "species_taxid": 364039, "relation_to_type": "type", "validated": true, "ani": 80.0853, "matched_fragments": 757, "total_fragments": 1688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hydrogenophaga crocea", "strain": "strain=BA0156", "accession": "GCA_011388215.1", "taxid": 2716225, "species_taxid": 2716225, "relation_to_type": "type", "validated": true, "ani": 79.4247, "matched_fragments": 587, "total_fragments": 1688, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Schlegelella brevitalea", "strain": "strain=DSM 7029", "accession": "GCA_001017435.1", "taxid": 413882, "species_taxid": 413882, "relation_to_type": "type", "validated": true, "ani": 79.3439, "matched_fragments": 611, "total_fragments": 1688, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_013410775.1", "gtdb_species": "s__Sphaerotilus montanus", "ani": 100.0, "matched_fragments": 1687, "total_fragments": 1688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Sphaerotilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_013299175.1", "gtdb_species": "s__Sphaerotilus sp013299175", "ani": 88.46, "matched_fragments": 995, "total_fragments": 1688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Sphaerotilus", "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_013299055.1", "gtdb_species": "s__Sphaerotilus sp013299055", "ani": 87.555, "matched_fragments": 937, "total_fragments": 1688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Sphaerotilus", "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_008329925.1", "gtdb_species": "s__Sphaerotilus sulfidivorans", "ani": 84.3591, "matched_fragments": 1044, "total_fragments": 1688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Sphaerotilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_013294065.1", "gtdb_species": "s__Sphaerotilus sp013294065", "ani": 84.2694, "matched_fragments": 1055, "total_fragments": 1688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Sphaerotilus", "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_900156335.1", "gtdb_species": "s__Sphaerotilus natans", "ani": 84.1922, "matched_fragments": 1028, "total_fragments": 1688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Sphaerotilus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003201595.1", "gtdb_species": "s__Sphaerotilus hippei", "ani": 82.8595, "matched_fragments": 823, "total_fragments": 1688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Sphaerotilus", "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_000019785.1", "gtdb_species": "s__Leptothrix cholodnii", "ani": 82.664, "matched_fragments": 878, "total_fragments": 1688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Leptothrix", "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_900142965.1", "gtdb_species": "s__Rhizobacter sp900142965", "ani": 80.0971, "matched_fragments": 751, "total_fragments": 1688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Rhizobacter", "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_012932665.1", "gtdb_species": "s__Rhizobacter sp012932665", "ani": 80.0605, "matched_fragments": 781, "total_fragments": 1688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Rhizobacter", "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_018241265.1", "gtdb_species": "s__JAFEEF01 sp018241265", "ani": 78.9553, "matched_fragments": 633, "total_fragments": 1688, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__JAFEEF01", "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": 26.0, "optimum_tmp": null, "optimum_ph": null, "genome_size": 4532287.833, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "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": [ "Sphaerotilus", "montanus" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }