{ "type": "genome", "identifier": "GCF_002723935.1", "organism": "Gluconobacter cerinus", "title": "Gluconobacter cerinus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002723935.1", "bioproject": "PRJNA224116", "biosample": "SAMD00093680", "wgs_master": "BEWM00000000.1", "refseq_category": "na", "taxid": "38307", "species_taxid": "38307", "organism_name": "Gluconobacter cerinus", "infraspecific_name": "strain=NBRC 3267", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/10/24", "asm_name": "ASM272393v1", "asm_submitter": "National Institute of Technology and Evaluation", "gbrs_paired_asm": "GCA_002723935.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/723/935/GCF_002723935.1_ASM272393v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3587595", "genome_size_ungapped": "3587595", "gc_percent": "55.500000", "replicon_count": "0", "scaffold_count": "49", "contig_count": "49", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002723935.1-RS_2024_12_15", "annotation_date": "2024-12-15", "total_gene_count": "3336", "protein_coding_gene_count": "3195", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-10-24", "dateModified": "2017-10-24", "datePublished": "2017-10-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Gluconobacter cerinus" ], "sample_taxid": [ "38307" ], "sample_host_organism": [ "Prunus sp." ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan:Osaka" ], "sample_host_location_id": [], "data_size": "1.020 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)": "3587595", "Number of Sequences": "49", "Longest Sequences (bp)": "875908", "N50 (bp)": "575896", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "55.6", "Number of CDSs": "3249", "Average Protein Length": "325.7", "Coding Ratio (%)": "88.5", "Number of rRNAs": "2", "Number of tRNAs": "47", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Gluconobacter cerinus", "strain": "strain=NBRC 3267", "accession": "GCA_002723935.1", "taxid": 38307, "species_taxid": 38307, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1169, "total_fragments": 1171, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Gluconobacter frateurii", "strain": "strain=NBRC 3264", "accession": "GCA_002723955.1", "taxid": 38308, "species_taxid": 38308, "relation_to_type": "suspected-type", "validated": true, "ani": 83.4183, "matched_fragments": 665, "total_fragments": 1171, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter thailandicus", "strain": "strain=NBRC 100600", "accession": "GCA_007990185.1", "taxid": 257438, "species_taxid": 257438, "relation_to_type": "type", "validated": true, "ani": 83.385, "matched_fragments": 655, "total_fragments": 1171, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter thailandicus", "strain": "strain=F149-1", "accession": "GCA_000964465.1", "taxid": 257438, "species_taxid": 257438, "relation_to_type": "type", "validated": true, "ani": 83.3391, "matched_fragments": 661, "total_fragments": 1171, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter japonicus", "strain": "strain=NBRC 3271", "accession": "GCA_002723975.1", "taxid": 376620, "species_taxid": 376620, "relation_to_type": "type", "validated": true, "ani": 82.9577, "matched_fragments": 632, "total_fragments": 1171, "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": 80.769, "matched_fragments": 401, "total_fragments": 1171, "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": 80.592, "matched_fragments": 404, "total_fragments": 1171, "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": 79.8882, "matched_fragments": 386, "total_fragments": 1171, "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": 79.8062, "matched_fragments": 364, "total_fragments": 1171, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter morbifer", "strain": "strain=G707", "accession": "GCA_000234355.2", "taxid": 479935, "species_taxid": 479935, "relation_to_type": "type", "validated": true, "ani": 78.9996, "matched_fragments": 335, "total_fragments": 1171, "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": 78.0999, "matched_fragments": 113, "total_fragments": 1171, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Asaia platycodi", "strain": "strain=JCM 25414", "accession": "GCA_000614545.1", "taxid": 610243, "species_taxid": 610243, "relation_to_type": "type", "validated": true, "ani": 77.8777, "matched_fragments": 107, "total_fragments": 1171, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neokomagataea thailandica", "strain": "strain=NBRC 106555", "accession": "GCA_001598495.1", "taxid": 661190, "species_taxid": 661190, "relation_to_type": "type", "validated": true, "ani": 77.597, "matched_fragments": 122, "total_fragments": 1171, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002723935.1", "gtdb_species": "s__Gluconobacter_A cerinus", "ani": 100.0, "matched_fragments": 1169, "total_fragments": 1171, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.40", "min_intra_species_ani": "95.61", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 20, "status": "conclusive" }, { "accession": "GCF_014132155.1", "gtdb_species": "s__Gluconobacter_A sp014132155", "ani": 93.5069, "matched_fragments": 888, "total_fragments": 1171, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.46", "min_intra_species_ani": "96.68", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.89", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002723955.1", "gtdb_species": "s__Gluconobacter_A frateurii", "ani": 83.4183, "matched_fragments": 665, "total_fragments": 1171, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.06", "min_intra_species_ani": "97.06", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000964465.1", "gtdb_species": "s__Gluconobacter_A thailandicus", "ani": 83.3525, "matched_fragments": 660, "total_fragments": 1171, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.77", "min_intra_species_ani": "97.43", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_002723975.1", "gtdb_species": "s__Gluconobacter_A japonicus", "ani": 82.9481, "matched_fragments": 634, "total_fragments": 1171, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.84", "min_intra_species_ani": "95.27", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.85", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_018256155.1", "gtdb_species": "s__Gluconobacter sp018256155", "ani": 81.2776, "matched_fragments": 426, "total_fragments": 1171, "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": 79.7915, "matched_fragments": 365, "total_fragments": 1171, "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_000234355.1", "gtdb_species": "s__Gluconobacter_C morbifer", "ani": 78.9996, "matched_fragments": 335, "total_fragments": 1171, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconobacter_C", "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_018122595.1", "gtdb_species": "s__Neokomagataea sp018122595", "ani": 78.0999, "matched_fragments": 113, "total_fragments": 1171, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Neokomagataea", "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": -0.208, "cell_length": 0.301, "doubling_h": -0.027, "growth_tmp": 27.0, "optimum_tmp": 26.491, "optimum_ph": 5.625, "genome_size": 3624183.5, "gc_content": 55.57, "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", "cerinus" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }