{ "type": "genome", "identifier": "GCF_025995055.1", "organism": "Gluconobacter kondonii NBRC 3266", "title": "Gluconobacter kondonii NBRC 3266", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Tokyo University of Agriculture", "publication": [ {} ], "properties": { "assembly_accession": "GCF_025995055.1", "bioproject": "PRJNA224116", "biosample": "SAMD00036725", "wgs_master": "BAQY00000000.1", "refseq_category": "na", "taxid": "1307949", "species_taxid": "941463", "organism_name": "Gluconobacter kondonii NBRC 3266", "infraspecific_name": "strain=NBRC 3266", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/08/03", "asm_name": "ASM2599505v1", "asm_submitter": "Tokyo University of Agriculture", "gbrs_paired_asm": "GCA_025995055.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/025/995/055/GCF_025995055.1_ASM2599505v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3475078", "genome_size_ungapped": "3475078", "gc_percent": "58.500000", "replicon_count": "0", "scaffold_count": "1326", "contig_count": "1326", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_025995055.1-RS_2024_12_16", "annotation_date": "2024-12-16", "total_gene_count": "3763", "protein_coding_gene_count": "3356", "non_coding_gene_count": "61", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-08-03", "dateModified": "2022-08-03", "datePublished": "2022-08-03", "_annotation": { "sample_count": 1, "sample_organism": [ "Gluconobacter kondonii NBRC 3266" ], "sample_taxid": [ "1307949" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.994 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 2.46, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3399842", "Number of Sequences": "885", "Longest Sequences (bp)": "265242", "N50 (bp)": "97407", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.3", "Number of CDSs": "2990", "Average Protein Length": "307.3", "Coding Ratio (%)": "81.1", "Number of rRNAs": "3", "Number of tRNAs": "49", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Gluconobacter kondonii", "strain": "strain=NBRC 3266", "accession": "GCA_002723995.1", "taxid": 941463, "species_taxid": 941463, "relation_to_type": "type", "validated": true, "ani": 99.9537, "matched_fragments": 964, "total_fragments": 974, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Gluconobacter cadivus", "strain": "strain=LMG 1744", "accession": "GCA_015244745.1", "taxid": 2728101, "species_taxid": 2728101, "relation_to_type": "type", "validated": true, "ani": 93.8633, "matched_fragments": 846, "total_fragments": 974, "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": 91.3457, "matched_fragments": 815, "total_fragments": 974, "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": 91.3005, "matched_fragments": 810, "total_fragments": 974, "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": 90.6832, "matched_fragments": 811, "total_fragments": 974, "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": 86.3748, "matched_fragments": 709, "total_fragments": 974, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter oxydans", "strain": "strain=DSM 3503", "accession": "GCA_004346605.1", "taxid": 442, "species_taxid": 442, "relation_to_type": "type", "validated": true, "ani": 86.1337, "matched_fragments": 714, "total_fragments": 974, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter oxydans", "strain": "strain=NBRC 14819", "accession": "GCA_006539685.1", "taxid": 442, "species_taxid": 442, "relation_to_type": "type", "validated": true, "ani": 85.916, "matched_fragments": 681, "total_fragments": 974, "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": 85.7335, "matched_fragments": 722, "total_fragments": 974, "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": 77.7186, "matched_fragments": 166, "total_fragments": 974, "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": 77.3095, "matched_fragments": 125, "total_fragments": 974, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.46, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002723995.1", "gtdb_species": "s__Gluconobacter kondonii", "ani": 99.9537, "matched_fragments": 964, "total_fragments": 974, "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": "conclusive" }, { "accession": "GCF_015244745.1", "gtdb_species": "s__Gluconobacter cadivus", "ani": 93.8633, 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811, "total_fragments": 974, "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_018256155.1", "gtdb_species": "s__Gluconobacter sp018256155", "ani": 86.4371, "matched_fragments": 738, "total_fragments": 974, "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_009547075.1", "gtdb_species": "s__Gluconobacter sp009547075", "ani": 86.3748, "matched_fragments": 709, 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"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": 85.6569, "matched_fragments": 722, "total_fragments": 974, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.153, "cell_length": 0.301, "doubling_h": -0.027, "growth_tmp": 27.381, "optimum_tmp": 25.0, "optimum_ph": 5.625, 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