{ "type": "genome", "identifier": "GCF_000963965.1", "organism": "Acetobacter orientalis", "title": "Acetobacter orientalis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Kinki University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000963965.1", "bioproject": "PRJNA224116", "biosample": "SAMD00036633", "wgs_master": "BAMX00000000.1", "refseq_category": "reference genome", "taxid": "146474", "species_taxid": "146474", "organism_name": "Acetobacter orientalis", "infraspecific_name": "strain=21F-2", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/03/21", "asm_name": "ASM96396v1", "asm_submitter": "Kinki University", "gbrs_paired_asm": "GCA_000963965.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/963/965/GCF_000963965.1_ASM96396v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "2910689", "genome_size_ungapped": "2910679", "gc_percent": "52.500000", "replicon_count": "0", "scaffold_count": "66", "contig_count": "66", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000963965.1-RS_2024_12_15", "annotation_date": "2024-12-15", "total_gene_count": "2608", "protein_coding_gene_count": "2528", "non_coding_gene_count": "50", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-03-21", "dateModified": "2015-03-21", "datePublished": "2015-03-21", "_annotation": { "sample_count": 1, "sample_organism": [ "Acetobacter orientalis" ], "sample_taxid": [ "146474" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "0.826 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)": "2908572", "Number of Sequences": "51", "Longest Sequences (bp)": "268874", "N50 (bp)": "159374", "Gap Ratio (%)": "0.000344", "GCcontent (%)": "52.4", "Number of CDSs": "2552", "Average Protein Length": "331.2", "Coding Ratio (%)": "87.2", "Number of rRNAs": "3", "Number of tRNAs": "42", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Acetobacter orientalis", "strain": "strain=21F-2", "accession": "GCA_000963965.1", "taxid": 146474, "species_taxid": 146474, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 943, "total_fragments": 945, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Acetobacter orientalis", "strain": "strain=NBRC 16606", "accession": "GCA_007989335.1", "taxid": 146474, "species_taxid": 146474, "relation_to_type": "type", "validated": true, "ani": 99.999, "matched_fragments": 938, "total_fragments": 945, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Acetobacter cibinongensis", "strain": "strain=4H-1", "accession": "GCA_000963925.1", "taxid": 146475, "species_taxid": 146475, "relation_to_type": "type", "validated": true, "ani": 80.4156, "matched_fragments": 408, "total_fragments": 945, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acetobacter cibinongensis", "strain": "strain=NBRC 16605", "accession": "GCA_007989305.1", "taxid": 146475, "species_taxid": 146475, "relation_to_type": "type", "validated": true, "ani": 80.4116, "matched_fragments": 409, "total_fragments": 945, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acetobacter senegalensis", "strain": "strain=LMG 23690", "accession": "GCA_001580995.1", "taxid": 446692, "species_taxid": 446692, "relation_to_type": "type", "validated": true, "ani": 79.1824, "matched_fragments": 343, "total_fragments": 945, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acetobacter indonesiensis", "strain": "strain=NBRC 16471", "accession": "GCA_007991075.1", "taxid": 104101, "species_taxid": 104101, "relation_to_type": "type", "validated": true, "ani": 79.1734, "matched_fragments": 354, "total_fragments": 945, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acetobacter indonesiensis", "strain": "strain=5H-1", "accession": "GCA_000963945.1", "taxid": 104101, "species_taxid": 104101, "relation_to_type": "type", "validated": true, "ani": 79.1581, "matched_fragments": 352, "total_fragments": 945, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acetobacter tropicalis", "strain": "strain=NBRC 16470", "accession": "GCA_007989245.1", "taxid": 104102, "species_taxid": 104102, "relation_to_type": "type", "validated": true, "ani": 78.9573, "matched_fragments": 324, "total_fragments": 945, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acetobacter ascendens", "strain": "strain=LMG 1590", "accession": "GCA_001766235.1", "taxid": 481146, "species_taxid": 481146, "relation_to_type": "type", "validated": true, "ani": 77.9876, "matched_fragments": 251, "total_fragments": 945, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000963965.1", "gtdb_species": "s__Acetobacter orientalis", "ani": 100.0, "matched_fragments": 943, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.55", "min_intra_species_ani": "97.80", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 7, "status": "conclusive" }, { "accession": "GCF_000963925.1", "gtdb_species": "s__Acetobacter cibinongensis", "ani": 80.4156, "matched_fragments": 408, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.47", "min_intra_species_ani": "96.95", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001580995.1", "gtdb_species": "s__Acetobacter senegalensis", "ani": 79.1824, "matched_fragments": 343, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.25", "min_intra_species_ani": "96.97", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.80", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_000963945.1", "gtdb_species": "s__Acetobacter indonesiensis", "ani": 79.1581, "matched_fragments": 352, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.28", "min_intra_species_ani": "96.85", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001580915.1", "gtdb_species": "s__Acetobacter tropicalis", "ani": 78.9633, "matched_fragments": 320, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.32", "min_intra_species_ani": "97.71", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.87", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_000613905.1", "gtdb_species": "s__Acetobacter persici", "ani": 78.7821, "matched_fragments": 264, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.00", "min_intra_species_ani": "95.85", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.79", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_001580535.1", "gtdb_species": "s__Acetobacter cerevisiae", "ani": 78.5443, "matched_fragments": 282, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.52", "min_intra_species_ani": "96.47", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001580615.1", "gtdb_species": "s__Acetobacter malorum", "ani": 78.4285, "matched_fragments": 290, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.98", "min_intra_species_ani": "95.83", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.80", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000723785.2", "gtdb_species": "s__Acetobacter pasteurianus", "ani": 78.1978, "matched_fragments": 260, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.11", "min_intra_species_ani": "97.27", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.78", "num_clustered_genomes": 27, "status": "-" }, { "accession": "GCF_002738225.1", "gtdb_species": "s__Acetobacter pomorum", "ani": 78.1355, "matched_fragments": 238, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.71", "min_intra_species_ani": "97.71", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.83", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004014775.2", "gtdb_species": "s__Acetobacter oryzoeni", "ani": 78.0531, "matched_fragments": 274, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.72", "min_intra_species_ani": "97.29", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.84", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001766235.1", "gtdb_species": "s__Acetobacter ascendens", "ani": 77.9876, "matched_fragments": 251, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.38", "min_intra_species_ani": "98.13", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.83", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_001499675.1", "gtdb_species": "s__Acetobacter ghanensis", "ani": 77.853, "matched_fragments": 248, "total_fragments": 945, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Acetobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.222, "cell_length": 0.301, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 29.785, "optimum_ph": 7.0, "genome_size": 3410623.727, "gc_content": 55.949, "coding_genes": 3181.851, "rRNA16S_genes": 4.233, "tRNA_genes": 57.388, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.875, "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": 0.7, "coccus_cell_shape": 0.1, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.2, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Acetobacter", "orientalis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }