{ "type": "genome", "identifier": "GCF_000172095.1", "organism": "Sulfitobacter indolifex HEL-45", "title": "Sulfitobacter indolifex HEL-45", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The Gordon and Betty Moore Foundation Microbial Genome Sequencing Project", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000172095.1", "bioproject": "PRJNA224116", "biosample": "SAMN02436097", "wgs_master": "ABID00000000.1", "refseq_category": "na", "taxid": "391624", "species_taxid": "225422", "organism_name": "Sulfitobacter indolifex HEL-45", "infraspecific_name": "strain=HEL-45", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2007/11/30", "asm_name": "ASM17209v1", "asm_submitter": "The Gordon and Betty Moore Foundation Microbial Genome Sequencing Project", "gbrs_paired_asm": "GCA_000172095.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/172/095/GCF_000172095.1_ASM17209v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4105524", "genome_size_ungapped": "4105524", "gc_percent": "59.500000", "replicon_count": "0", "scaffold_count": "105", "contig_count": "105", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000172095.1-RS_2024_04_22", "annotation_date": "2024-04-22", "total_gene_count": "4085", "protein_coding_gene_count": "3937", "non_coding_gene_count": "60", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2007-11-30", "dateModified": "2007-11-30", "datePublished": "2007-11-30", "_annotation": { "sample_count": 1, "sample_organism": [ "Sulfitobacter indolifex HEL-45" ], "sample_taxid": [ "391624" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.161 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)": "4105524", "Number of Sequences": "105", "Longest Sequences (bp)": "1621674", "N50 (bp)": "473154", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.5", "Number of CDSs": "3988", "Average Protein Length": "298.2", "Coding Ratio (%)": "86.9", "Number of rRNAs": "9", "Number of tRNAs": "51", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Sulfitobacter indolifex", "strain": "strain=HEL-45", "accession": "GCA_000172095.1", "taxid": 225422, "species_taxid": 225422, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1313, "total_fragments": 1317, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sulfitobacter indolifex", "strain": "strain=DSM 14862", "accession": "GCA_022788655.1", "taxid": 225422, "species_taxid": 225422, "relation_to_type": "type", "validated": true, "ani": 99.9852, "matched_fragments": 1312, "total_fragments": 1317, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Sulfitobacter dubius", "strain": "strain=DSM 16472", "accession": "GCA_900113435.1", "taxid": 218673, "species_taxid": 218673, "relation_to_type": "type", "validated": true, "ani": 87.3566, "matched_fragments": 958, "total_fragments": 1317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter delicatus", "strain": "strain=DSM 16477", "accession": "GCA_900102535.1", "taxid": 218672, "species_taxid": 218672, "relation_to_type": "type", "validated": true, "ani": 84.4426, "matched_fragments": 859, "total_fragments": 1317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Sulfitobacter maritimus", "strain": "strain=S0837", "accession": "GCA_013346665.1", "taxid": 2741719, "species_taxid": 2741719, "relation_to_type": "type", "validated": true, "ani": 84.0911, "matched_fragments": 810, "total_fragments": 1317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marivivens aquimaris", "strain": "strain=GSB7", "accession": "GCA_015220045.1", "taxid": 2774876, "species_taxid": 2774876, "relation_to_type": "type", "validated": true, "ani": 78.6571, "matched_fragments": 221, "total_fragments": 1317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudooceanicola algae", "strain": "strain=Lw-13e", "accession": "GCA_003590145.2", "taxid": 1537215, "species_taxid": 1537215, "relation_to_type": "type", "validated": true, "ani": 77.3765, "matched_fragments": 255, "total_fragments": 1317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mameliella sediminis", "strain": "strain=DP3N28-2", "accession": "GCA_019218285.1", "taxid": 2836866, "species_taxid": 2836866, "relation_to_type": "type", "validated": true, "ani": 77.2462, "matched_fragments": 274, "total_fragments": 1317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Donghicola tyrosinivorans", "strain": "strain=DSM 100212", "accession": "GCA_003003355.1", "taxid": 1652492, "species_taxid": 1652492, "relation_to_type": "type", "validated": true, "ani": 77.2392, "matched_fragments": 229, "total_fragments": 1317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodobacter amnigenus", "strain": "strain=HSP-20", "accession": "GCA_009908265.2", "taxid": 2852097, "species_taxid": 2852097, "relation_to_type": "type", "validated": true, "ani": 76.9473, "matched_fragments": 213, "total_fragments": 1317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gemmobacter fulva", "strain": "strain=con5", "accession": "GCA_018798885.1", "taxid": 2840474, "species_taxid": 2840474, "relation_to_type": "type", "validated": true, "ani": 76.869, "matched_fragments": 256, "total_fragments": 1317, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000172095.1", "gtdb_species": "s__Sulfitobacter indolifex", "ani": 100.0, "matched_fragments": 1312, "total_fragments": 1317, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sulfitobacter", "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": "GCF_003611275.1", "gtdb_species": "s__Sulfitobacter sp001634775", "ani": 87.7493, "matched_fragments": 991, 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1317, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sulfitobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.87", "min_intra_species_ani": "96.48", "mean_intra_species_af": "0.79", "min_intra_species_af": "0.78", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_017743885.1", "gtdb_species": "s__Sulfitobacter sp001635605", "ani": 86.1764, "matched_fragments": 910, "total_fragments": 1317, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sulfitobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.54", "min_intra_species_ani": "95.97", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900102535.1", "gtdb_species": "s__Sulfitobacter delicatus", "ani": 84.4426, "matched_fragments": 859, "total_fragments": 1317, 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"d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Rhodobacterales;f__Rhodobacteraceae;g__Sulfitobacter", "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": -0.177, "cell_length": 0.069, "doubling_h": null, "growth_tmp": 25.454, "optimum_tmp": 26.0, "optimum_ph": 7.666, "genome_size": 3955357.802, "gc_content": 59.436, "coding_genes": 4865.0, "rRNA16S_genes": 2.0, "tRNA_genes": 43.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.4, "range_salinity": 1.0, "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": 0.833, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.166, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Sulfitobacter", "indolifex", "HEL-45" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }