{ "type": "genome", "identifier": "GCF_015244745.1", "organism": "Gluconobacter cadivus", "title": "Gluconobacter cadivus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Ghent University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_015244745.1", "bioproject": "PRJNA224116", "biosample": "SAMN14532028", "wgs_master": "JABCQI000000000.1", "refseq_category": "reference genome", "taxid": "2728101", "species_taxid": "2728101", "organism_name": "Gluconobacter cadivus", "infraspecific_name": "strain=LMG 1744", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/11/05", "asm_name": "ASM1524474v1", "asm_submitter": "Ghent University", "gbrs_paired_asm": "GCA_015244745.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/015/244/745/GCF_015244745.1_ASM1524474v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3291690", "genome_size_ungapped": "3291690", "gc_percent": "58.500000", "replicon_count": "0", "scaffold_count": "32", "contig_count": "32", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_015244745.1-RS_2024_12_22", "annotation_date": "2024-12-22", "total_gene_count": "3144", "protein_coding_gene_count": "3038", "non_coding_gene_count": "55", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-11-05", "dateModified": "2020-11-05", "datePublished": "2020-11-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Gluconobacter cadivus" ], "sample_taxid": [ "2728101" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Belgium" ], "sample_host_location_id": [], "data_size": "0.929 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)": "3291690", "Number of Sequences": "32", "Longest Sequences (bp)": "629431", "N50 (bp)": "277594", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.5", "Number of CDSs": "3100", "Average Protein Length": "319.6", "Coding Ratio (%)": "90.3", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Gluconobacter cadivus", "strain": "strain=LMG 1744", "accession": "GCA_015244745.1", "taxid": 2728101, "species_taxid": 2728101, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1083, "total_fragments": 1083, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Gluconobacter kondonii", "strain": "strain=NBRC 3266", "accession": "GCA_002723995.1", "taxid": 941463, "species_taxid": 941463, "relation_to_type": "type", "validated": true, "ani": 93.7504, "matched_fragments": 864, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter albidus", "strain": "strain=NBRC 3250", "accession": "GCA_002723915.1", "taxid": 318683, "species_taxid": 318683, "relation_to_type": "type", "validated": true, "ani": 91.1503, "matched_fragments": 865, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter cerevisiae", "strain": "strain=DSM 27644", "accession": "GCA_018811965.1", "taxid": 1379734, "species_taxid": 1379734, "relation_to_type": "type", "validated": true, "ani": 90.6687, "matched_fragments": 821, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter cerevisiae", "strain": "strain=LMG 27748", "accession": "GCA_015244675.1", "taxid": 1379734, "species_taxid": 1379734, "relation_to_type": "type", "validated": true, "ani": 90.6628, "matched_fragments": 821, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter aidae", "strain": "strain=AC10", "accession": "GCA_009547075.1", "taxid": 2662454, "species_taxid": 2662454, "relation_to_type": "type", "validated": true, "ani": 86.6105, "matched_fragments": 737, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter potus", "strain": "strain=R-71646", "accession": "GCA_015244705.1", "taxid": 2724927, "species_taxid": 2724927, "relation_to_type": "type", "validated": true, "ani": 85.8929, "matched_fragments": 762, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter sphaericus", "strain": "strain=NBRC 12467", "accession": "GCA_006539125.1", "taxid": 574987, "species_taxid": 574987, "relation_to_type": "type", "validated": true, "ani": 85.8597, "matched_fragments": 726, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter sphaericus", "strain": "strain=LMG1414", "accession": "GCA_015244605.1", "taxid": 574987, "species_taxid": 574987, "relation_to_type": "type", "validated": true, "ani": 85.8357, "matched_fragments": 739, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Asaia lannensis", "strain": "strain=NBRC 102526", "accession": "GCA_024054035.1", "taxid": 415421, "species_taxid": 415421, "relation_to_type": "type", "validated": true, "ani": 77.8653, "matched_fragments": 181, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acetobacter garciniae", "strain": "strain=TBRC 12339", "accession": "GCA_017377735.1", "taxid": 2817435, "species_taxid": 2817435, "relation_to_type": "type", "validated": true, "ani": 77.3996, "matched_fragments": 141, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neokomagataea anthophila", "strain": "strain=TBRC 2177", "accession": "GCA_018122595.1", "taxid": 2826925, "species_taxid": 2826925, "relation_to_type": "type", "validated": true, "ani": 77.3754, "matched_fragments": 124, "total_fragments": 1083, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_015244745.1", "gtdb_species": "s__Gluconobacter cadivus", "ani": 100.0, "matched_fragments": 1083, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.53", "min_intra_species_ani": "96.31", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCF_002723995.1", "gtdb_species": "s__Gluconobacter kondonii", "ani": 93.7504, "matched_fragments": 864, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.23", "min_intra_species_ani": "97.04", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.87", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_002723915.1", "gtdb_species": "s__Gluconobacter albidus", "ani": 91.1338, "matched_fragments": 866, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.35", "min_intra_species_ani": "97.61", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_015244675.1", "gtdb_species": "s__Gluconobacter cerevisiae", "ani": 90.6307, "matched_fragments": 823, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009547075.1", "gtdb_species": "s__Gluconobacter sp009547075", "ani": 86.6105, "matched_fragments": 737, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter", "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_018256155.1", "gtdb_species": "s__Gluconobacter sp018256155", "ani": 86.4982, "matched_fragments": 767, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter", "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_006539685.1", "gtdb_species": "s__Gluconobacter oxydans", "ani": 86.1042, "matched_fragments": 703, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.14", "min_intra_species_ani": "96.18", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.85", "num_clustered_genomes": 13, "status": "-" }, { "accession": "GCF_006539125.1", "gtdb_species": "s__Gluconobacter sphaericus", "ani": 85.857, "matched_fragments": 727, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.91", "min_intra_species_ani": "98.17", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_015244565.1", "gtdb_species": "s__Gluconobacter vitians", "ani": 85.7551, "matched_fragments": 741, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter", "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_007988905.1", "gtdb_species": "s__Gluconobacter kanchanaburiensis", "ani": 85.5888, "matched_fragments": 657, "total_fragments": 1083, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter", "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": -0.153, "cell_length": 0.301, "doubling_h": -0.027, "growth_tmp": 27.381, "optimum_tmp": 26.491, "optimum_ph": 5.625, "genome_size": 3267920.175, "gc_content": 57.761, "coding_genes": 2938.4, "rRNA16S_genes": 4.75, "tRNA_genes": 56.643, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "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": [ "Gluconobacter", "cadivus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }