{ "type": "genome", "identifier": "GCF_016722785.1", "organism": "Ramlibacter monticola", "title": "Ramlibacter monticola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Dongguk University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016722785.1", "bioproject": "PRJNA224116", "biosample": "SAMN17221999", "wgs_master": "JAEQNE000000000.1", "refseq_category": "reference genome", "taxid": "1926872", "species_taxid": "1926872", "organism_name": "Ramlibacter monticola", "infraspecific_name": "strain=KACC 19175", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/01/19", "asm_name": "ASM1672278v1", "asm_submitter": "Dongguk University", "gbrs_paired_asm": "GCA_016722785.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/722/785/GCF_016722785.1_ASM1672278v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6137276", "genome_size_ungapped": "6137178", "gc_percent": "69.500000", "replicon_count": "0", "scaffold_count": "19", "contig_count": "19", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016722785.1-RS_2024_12_16", "annotation_date": "2024-12-16", "total_gene_count": "5938", "protein_coding_gene_count": "5820", "non_coding_gene_count": "59", "pubmed_id": "28950933" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-01-19", "dateModified": "2021-01-19", "datePublished": "2021-01-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Ramlibacter monticola" ], "sample_taxid": [ "1926872" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Suwon" ], "sample_host_location_id": [], "data_size": "1.653 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)": "6137276", "Number of Sequences": "19", "Longest Sequences (bp)": "1650239", "N50 (bp)": "644063", "Gap Ratio (%)": "0.001597", "GCcontent (%)": "69.3", "Number of CDSs": "5935", "Average Protein Length": "315.8", "Coding Ratio (%)": "91.6", "Number of rRNAs": "6", "Number of tRNAs": "55", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Ramlibacter monticola", "strain": "strain=KACC 19175", "accession": "GCA_016722785.1", "taxid": 1926872, "species_taxid": 1926872, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2034, "total_fragments": 2036, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Ramlibacter alkalitolerans", "strain": "strain=KACC 19305", "accession": "GCA_016722765.1", "taxid": 2039631, "species_taxid": 2039631, "relation_to_type": "type", "validated": true, "ani": 86.5965, "matched_fragments": 1355, "total_fragments": 2036, "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": 83.5727, "matched_fragments": 1188, "total_fragments": 2036, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter tataouinensis", "strain": "strain=TTB310", "accession": "GCA_000215705.1", "taxid": 94132, "species_taxid": 94132, "relation_to_type": "type", "validated": true, "ani": 82.6968, "matched_fragments": 877, "total_fragments": 2036, "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": 82.5957, "matched_fragments": 898, "total_fragments": 2036, "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": 82.3459, "matched_fragments": 868, "total_fragments": 2036, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter pinisoli", "strain": "strain=MAH-25", "accession": "GCA_009758015.1", "taxid": 2682844, "species_taxid": 2682844, "relation_to_type": "type", "validated": true, "ani": 82.3224, "matched_fragments": 1011, "total_fragments": 2036, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ramlibacter aquaticus", "strain": "strain=LMG 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2716225, "species_taxid": 2716225, "relation_to_type": "type", "validated": true, "ani": 80.5325, "matched_fragments": 748, "total_fragments": 2036, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016722785.1", "gtdb_species": "s__Ramlibacter monticola", "ani": 100.0, "matched_fragments": 2034, "total_fragments": 2036, "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_016722765.1", "gtdb_species": "s__Ramlibacter alkalitolerans", "ani": 86.5768, "matched_fragments": 1356, "total_fragments": 2036, "gtdb_taxonomy": 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"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": 84.2485, "matched_fragments": 965, "total_fragments": 2036, "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_015070875.1", "gtdb_species": "s__Ramlibacter sp015070875", "ani": 84.0401, "matched_fragments": 985, "total_fragments": 2036, "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": 83.531, "matched_fragments": 1193, "total_fragments": 2036, "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_016654015.1", "gtdb_species": "s__Ramlibacter ginsenosidimutans", "ani": 83.4757, "matched_fragments": 1071, "total_fragments": 2036, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 29.333, "optimum_tmp": 30.0, "optimum_ph": 7.5, "genome_size": 4614330.857, "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", "monticola" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }