{ "type": "genome", "identifier": "GCF_000215705.1", "organism": "Ramlibacter tataouinensis TTB310", "title": "Ramlibacter tataouinensis TTB310", "description": "na", "data type": "Genome sequencing and assembly", "organization": "CEA-CNRS", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000215705.1", "bioproject": "PRJNA224116", "biosample": "SAMN02603053", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "365046", "species_taxid": "94132", "organism_name": "Ramlibacter tataouinensis TTB310", "infraspecific_name": "strain=TTB310", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2011/06/03", "asm_name": "ASM21570v1", "asm_submitter": "CEA-CNRS", "gbrs_paired_asm": "GCA_000215705.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/215/705/GCF_000215705.1_ASM21570v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4070193", "genome_size_ungapped": "4070193", "gc_percent": "70.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000215705.1-RS_2024_08_04", "annotation_date": "2024-08-04", "total_gene_count": "4011", "protein_coding_gene_count": "3923", "non_coding_gene_count": "49", "pubmed_id": "21912644" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2011-06-03", "dateModified": "2011-06-03", "datePublished": "2011-06-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Ramlibacter tataouinensis TTB310" ], "sample_taxid": [ "365046" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.088 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)": "4070193", "Number of Sequences": "1", "Longest Sequences (bp)": "4070193", "N50 (bp)": "4070193", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.0", "Number of CDSs": "4002", "Average Protein Length": "315.8", "Coding Ratio (%)": "93.2", "Number of rRNAs": "3", "Number of tRNAs": "47", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Ramlibacter tataouinensis", "strain": "strain=TTB310", "accession": "GCA_000215705.1", "taxid": 94132, "species_taxid": 94132, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1356, "total_fragments": 1356, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Ramlibacter pinisoli", "strain": "strain=MAH-25", "accession": "GCA_009758015.1", "taxid": 2682844, "species_taxid": 2682844, "relation_to_type": "type", "validated": true, "ani": 84.1226, "matched_fragments": 887, "total_fragments": 1356, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter humi", "strain": "strain=18x22-1", "accession": "GCA_004681975.1", "taxid": 2530451, "species_taxid": 2530451, "relation_to_type": "type", "validated": true, "ani": 83.9419, "matched_fragments": 850, "total_fragments": 1356, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter aquaticus", "strain": "strain=LMG 30558", "accession": "GCA_015159745.1", "taxid": 2780094, "species_taxid": 2780094, "relation_to_type": "type", "validated": true, "ani": 83.8093, "matched_fragments": 731, "total_fragments": 1356, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter henchirensis", "strain": "strain=DSM 14656", "accession": "GCA_004682015.1", "taxid": 204072, "species_taxid": 204072, "relation_to_type": "type", "validated": true, "ani": 83.7636, "matched_fragments": 869, "total_fragments": 1356, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter rhizophilus", "strain": "strain=CCTCC AB2015357", "accession": "GCA_004681965.1", "taxid": 1781167, "species_taxid": 1781167, "relation_to_type": "type", "validated": true, "ani": 83.4719, "matched_fragments": 824, "total_fragments": 1356, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter algicola", "strain": "strain=CrO1", "accession": "GCA_016641735.1", "taxid": 2795217, "species_taxid": 2795217, "relation_to_type": "type", "validated": true, "ani": 83.1278, "matched_fragments": 812, "total_fragments": 1356, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter monticola", "strain": "strain=KACC 19175", "accession": "GCA_016722785.1", "taxid": 1926872, "species_taxid": 1926872, "relation_to_type": "type", "validated": true, "ani": 82.9152, "matched_fragments": 850, "total_fragments": 1356, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter agri", "strain": "strain=G-1-2-2", "accession": "GCA_012927085.1", "taxid": 2728837, "species_taxid": 2728837, "relation_to_type": "type", "validated": true, "ani": 82.8316, "matched_fragments": 869, "total_fragments": 1356, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter alkalitolerans", "strain": "strain=KACC 19305", "accession": "GCA_016722765.1", "taxid": 2039631, "species_taxid": 2039631, "relation_to_type": "type", "validated": true, "ani": 82.7361, "matched_fragments": 845, "total_fragments": 1356, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter lithotrophicus", "strain": "strain=RBP-1", "accession": "GCA_012184415.1", "taxid": 2606681, "species_taxid": 2606681, "relation_to_type": "type", "validated": true, "ani": 82.1849, "matched_fragments": 821, "total_fragments": 1356, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Xylophilus ampelinus", "strain": "strain=CFBP 1192", "accession": "GCA_024832295.1", "taxid": 54067, "species_taxid": 54067, "relation_to_type": "type", "validated": true, "ani": 80.8717, "matched_fragments": 597, "total_fragments": 1356, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000215705.1", "gtdb_species": "s__Ramlibacter tataouinensis", "ani": 100.0, "matched_fragments": 1356, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_001424545.1", "gtdb_species": "s__Ramlibacter sp001424545", "ani": 84.8141, "matched_fragments": 906, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_014874145.1", "gtdb_species": "s__Ramlibacter sp014874145", "ani": 84.6056, "matched_fragments": 914, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_013778345.1", "gtdb_species": "s__Ramlibacter sp013778345", "ani": 84.1589, "matched_fragments": 884, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_004682015.1", "gtdb_species": "s__Ramlibacter henchirensis", "ani": 83.845, "matched_fragments": 861, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_015159745.1", "gtdb_species": "s__Ramlibacter aquaticus", "ani": 83.8057, "matched_fragments": 732, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_013087525.1", "gtdb_species": "s__Ramlibacter sp013087525", "ani": 83.7183, "matched_fragments": 872, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_004681965.1", "gtdb_species": "s__Ramlibacter rhizophilus", "ani": 83.4662, "matched_fragments": 826, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_016191525.1", "gtdb_species": "s__Ramlibacter sp016191525", "ani": 83.1609, "matched_fragments": 821, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_001580455.1", "gtdb_species": "s__Ramlibacter tataouinensis_B", "ani": 83.1266, "matched_fragments": 797, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_004144865.1", "gtdb_species": "s__Ramlibacter sp004144865", "ani": 83.1251, "matched_fragments": 778, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_016722785.1", "gtdb_species": "s__Ramlibacter monticola", "ani": 82.8558, "matched_fragments": 856, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_014297465.1", "gtdb_species": "s__Ramlibacter sp014297465", "ani": 82.854, "matched_fragments": 847, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_012927085.1", "gtdb_species": "s__Ramlibacter sp012927085", "ani": 82.8408, "matched_fragments": 870, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_016722765.1", "gtdb_species": "s__Ramlibacter alkalitolerans", "ani": 82.7752, "matched_fragments": 841, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_013155545.1", "gtdb_species": "s__Ramlibacter soli", "ani": 82.5379, "matched_fragments": 806, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_016722895.1", "gtdb_species": "s__Ramlibacter sp016722895", "ani": 82.5228, "matched_fragments": 721, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ramlibacter", "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_016702555.1", "gtdb_species": "s__Ottowia sp016702555", "ani": 81.0768, "matched_fragments": 647, "total_fragments": 1356, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Ottowia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.62", "min_intra_species_ani": "99.62", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 30.0, "optimum_ph": 7.5, "genome_size": 4312031.714, "gc_content": 69.2, "coding_genes": 4012.5, "rRNA16S_genes": 1.333, "tRNA_genes": 44.333, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 0.0, "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": 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": [ "Ramlibacter", "tataouinensis", "TTB310" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }