{ "type": "genome", "identifier": "GCF_020164555.1", "organism": "Salegentibacter lacus", "title": "Salegentibacter lacus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Guangdong Institute of Microbiology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_020164555.1", "bioproject": "PRJNA224116", "biosample": "SAMN21033597", "wgs_master": "JAIQZB000000000.1", "refseq_category": "reference genome", "taxid": "2873599", "species_taxid": "2873599", "organism_name": "Salegentibacter lacus", "infraspecific_name": "strain=LM13S", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/09/25", "asm_name": "ASM2016455v1", "asm_submitter": "Guangdong Institute of Microbiology", "gbrs_paired_asm": "GCA_020164555.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/020/164/555/GCF_020164555.1_ASM2016455v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4054538", "genome_size_ungapped": "4054342", "gc_percent": "37.000000", "replicon_count": "0", "scaffold_count": "128", "contig_count": "128", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_020164555.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3671", "protein_coding_gene_count": "3577", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-09-25", "dateModified": "2021-09-25", "datePublished": "2021-09-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Salegentibacter lacus" ], "sample_taxid": [ "2873599" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Tibet" ], "sample_host_location_id": [], "data_size": "1.144 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)": "4054538", "Number of Sequences": "128", "Longest Sequences (bp)": "318551", "N50 (bp)": "180911", "Gap Ratio (%)": "0.004834", "GCcontent (%)": "37.0", "Number of CDSs": "3501", "Average Protein Length": "338.2", "Coding Ratio (%)": "87.6", "Number of rRNAs": "2", "Number of tRNAs": "43", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Salegentibacter lacus", "strain": "strain=LM13S", "accession": "GCA_020164555.1", "taxid": 2873599, "species_taxid": 2873599, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1310, "total_fragments": 1312, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Salegentibacter salinarum", "strain": "strain=DSM 23400", "accession": "GCA_900168115.1", "taxid": 447422, "species_taxid": 447422, "relation_to_type": "type", "validated": true, "ani": 86.6833, "matched_fragments": 961, "total_fragments": 1312, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter tibetensis", "strain": "strain=JZCK2", "accession": "GCA_020164485.1", "taxid": 2873600, "species_taxid": 2873600, "relation_to_type": "type", "validated": true, "ani": 86.6497, "matched_fragments": 914, "total_fragments": 1312, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter salinarum", "strain": "strain=KCTC 12975", "accession": "GCA_002833365.1", "taxid": 447422, "species_taxid": 447422, "relation_to_type": "type", "validated": true, "ani": 86.6338, "matched_fragments": 987, "total_fragments": 1312, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter salegens", "strain": "strain=DSM 5424", "accession": "GCA_003001895.1", "taxid": 143223, "species_taxid": 143223, "relation_to_type": "type", "validated": true, "ani": 86.1527, "matched_fragments": 918, "total_fragments": 1312, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter salegens", "strain": "strain=ACAM 48", "accession": "GCA_900142975.1", "taxid": 143223, "species_taxid": 143223, "relation_to_type": "type", "validated": true, "ani": 86.0303, "matched_fragments": 937, "total_fragments": 1312, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter agarivorans", "strain": "strain=DSM 23515", "accession": "GCA_900113135.1", "taxid": 345907, "species_taxid": 345907, "relation_to_type": "type", "validated": true, "ani": 85.9846, "matched_fragments": 946, "total_fragments": 1312, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter salarius", "strain": "strain=DSM 23401", "accession": "GCA_900168265.1", "taxid": 435906, "species_taxid": 435906, "relation_to_type": "type", "validated": true, "ani": 85.4655, "matched_fragments": 863, "total_fragments": 1312, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Salegentibacter salarius", "strain": "strain=KCTC 12974", "accession": "GCA_002833385.1", "taxid": 435906, "species_taxid": 435906, "relation_to_type": "type", "validated": true, "ani": 85.4469, "matched_fragments": 859, "total_fragments": 1312, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gramella lutea", "strain": "strain=YJ019", "accession": "GCA_022489035.1", "taxid": 1607951, "species_taxid": 1607951, "relation_to_type": "type", "validated": true, "ani": 77.1517, "matched_fragments": 209, "total_fragments": 1312, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Joostella atrarenae", "strain": "strain=M1-2", "accession": "GCA_021764745.1", "taxid": 679257, "species_taxid": 679257, "relation_to_type": "type", "validated": true, "ani": 76.2451, "matched_fragments": 88, "total_fragments": 1312, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Abyssalbus ytuae", "strain": "strain=MT3330", "accession": "GCA_022807975.1", "taxid": 2926907, "species_taxid": 2926907, "relation_to_type": "type", "validated": true, "ani": 76.0635, "matched_fragments": 70, "total_fragments": 1312, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900168115.1", "gtdb_species": "s__Salegentibacter salinarum", "ani": 86.6957, "matched_fragments": 960, "total_fragments": 1312, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900142975.1", "gtdb_species": "s__Salegentibacter salegens", "ani": 86.0303, "matched_fragments": 938, "total_fragments": 1312, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "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_900113135.1", "gtdb_species": "s__Salegentibacter agarivorans", "ani": 86.0015, "matched_fragments": 945, "total_fragments": 1312, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.64", "min_intra_species_ani": "95.65", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_900168265.1", "gtdb_species": "s__Salegentibacter salarius", "ani": 85.475, "matched_fragments": 861, "total_fragments": 1312, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002900095.1", "gtdb_species": "s__Salegentibacter mishustinae", "ani": 84.3252, "matched_fragments": 867, "total_fragments": 1312, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "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": 4, "status": "-" }, { "accession": "GCF_000745315.1", "gtdb_species": "s__Salegentibacter sp000745315", "ani": 83.8899, "matched_fragments": 906, "total_fragments": 1312, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "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_900168045.1", "gtdb_species": "s__Salegentibacter holothuriorum", "ani": 83.2338, "matched_fragments": 826, "total_fragments": 1312, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Salegentibacter", "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": -0.263, "cell_length": 0.436, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 27.142, "optimum_ph": 7.787, "genome_size": 3865568.937, "gc_content": 36.939, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.2, "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": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Salegentibacter", "lacus" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }