{ "type": "genome", "identifier": "GCF_003403295.1", "organism": "Komagataeibacter melaceti", "title": "Komagataeibacter melaceti", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Faculty of Natural Sciences and Mathematics", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003403295.1", "bioproject": "PRJNA224116", "biosample": "SAMN09786566", "wgs_master": "QUWV00000000.1", "refseq_category": "reference genome", "taxid": "2766577", "species_taxid": "2766577", "organism_name": "Komagataeibacter melaceti", "infraspecific_name": "strain=AV382", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/08/19", "asm_name": "ASM340329v1", "asm_submitter": "Faculty of Natural Sciences and Mathematics", "gbrs_paired_asm": "GCA_003403295.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/403/295/GCF_003403295.1_ASM340329v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3493909", "genome_size_ungapped": "3493909", "gc_percent": "62.500000", "replicon_count": "0", "scaffold_count": "248", "contig_count": "248", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003403295.1-RS_2024_12_15", "annotation_date": "2024-12-15", "total_gene_count": "3419", "protein_coding_gene_count": "3236", "non_coding_gene_count": "54", "pubmed_id": "32756518" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-08-19", "dateModified": "2018-08-19", "datePublished": "2018-08-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Komagataeibacter melaceti" ], "sample_taxid": [ "2766577" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Slovenia: Kopivnik 13, 2313 Fram" ], "sample_host_location_id": [], "data_size": "0.985 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)": "3493909", "Number of Sequences": "248", "Longest Sequences (bp)": "116726", "N50 (bp)": "49803", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "62.7", "Number of CDSs": "3187", "Average Protein Length": "307.7", "Coding Ratio (%)": "84.2", "Number of rRNAs": "3", "Number of tRNAs": "48", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Komagataeibacter melaceti", "strain": "strain=AV382", "accession": "GCA_003403295.1", "taxid": 2766577, "species_taxid": 2766577, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1061, "total_fragments": 1070, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Komagataeibacter kakiaceti", "strain": "strain=JCM 25156", "accession": "GCA_000613305.1", "taxid": 943261, "species_taxid": 943261, "relation_to_type": "type", "validated": true, "ani": 88.6736, "matched_fragments": 448, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Komagataeibacter swingsii", "strain": "strain=LMG 22125", "accession": "GCA_003207895.1", "taxid": 215220, "species_taxid": 215220, "relation_to_type": "type", "validated": true, "ani": 85.9821, "matched_fragments": 753, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Komagataeibacter melomenusus", "strain": "strain=AV436", "accession": "GCA_013155395.1", "taxid": 2766578, "species_taxid": 2766578, "relation_to_type": "type", "validated": true, "ani": 85.4424, "matched_fragments": 727, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Komagataeibacter sucrofermentans", "strain": "strain=LMG 18788", "accession": "GCA_003207865.1", "taxid": 1053551, "species_taxid": 1053551, "relation_to_type": "type", "validated": true, "ani": 85.4297, "matched_fragments": 709, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Komagataeibacter europaeus", "strain": "strain=type strain:LMG 18890", "accession": "GCA_000285295.1", "taxid": 33995, "species_taxid": 33995, "relation_to_type": "suspected-type", "validated": true, "ani": 85.4257, "matched_fragments": 754, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Komagataeibacter intermedius", "strain": "strain=TF2", "accession": "GCA_000964425.1", "taxid": 66229, "species_taxid": 66229, "relation_to_type": "type", "validated": true, "ani": 85.1453, "matched_fragments": 725, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Komagataeibacter xylinus", "strain": "strain=NBRC 15237", "accession": "GCA_001571345.1", "taxid": 28448, "species_taxid": 28448, "relation_to_type": "suspected-type", "validated": true, "ani": 85.1409, "matched_fragments": 736, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Komagataeibacter xylinus", "strain": "strain=LMG 1515", "accession": "GCA_003207915.1", "taxid": 28448, "species_taxid": 28448, "relation_to_type": "suspected-type", "validated": true, "ani": 85.1, "matched_fragments": 739, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Komagataeibacter nataicola", "strain": "strain=LMG 1536", "accession": "GCA_003207795.1", "taxid": 265960, "species_taxid": 265960, "relation_to_type": "type", "validated": true, "ani": 85.0586, "matched_fragments": 726, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Komagataeibacter saccharivorans", "strain": "strain=LMG 1582", "accession": "GCA_003207825.1", "taxid": 265959, "species_taxid": 265959, "relation_to_type": "type", "validated": true, "ani": 85.057, "matched_fragments": 735, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Komagataeibacter oboediens", "strain": "strain=LMG 18849", "accession": "GCA_003207815.1", "taxid": 65958, "species_taxid": 65958, "relation_to_type": "type", "validated": true, "ani": 84.7926, "matched_fragments": 734, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Komagataeibacter diospyri", "strain": "strain=MSKU 9", "accession": "GCA_006538165.1", "taxid": 1932662, "species_taxid": 1932662, "relation_to_type": "type", "validated": true, "ani": 84.5916, "matched_fragments": 733, "total_fragments": 1070, "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": 78.7648, "matched_fragments": 331, "total_fragments": 1070, "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": 77.945, "matched_fragments": 214, "total_fragments": 1070, "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": 77.67, "matched_fragments": 134, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Roseomonas rubea", "strain": "strain=MO17", "accession": "GCA_016106015.1", "taxid": 2748666, "species_taxid": 2748666, "relation_to_type": "type", "validated": true, "ani": 76.6074, "matched_fragments": 114, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidiphilium iwatense", "strain": "strain=KCTC 23505", "accession": "GCA_021556475.1", "taxid": 768198, "species_taxid": 768198, "relation_to_type": "type", "validated": true, "ani": 76.3478, "matched_fragments": 101, "total_fragments": 1070, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003403295.1", "gtdb_species": "s__Komagataeibacter melaceti", "ani": 100.0, "matched_fragments": 1061, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "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_014199155.1", "gtdb_species": "s__Komagataeibacter kakiaceti", "ani": 89.6623, "matched_fragments": 874, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.94", "min_intra_species_ani": "99.94", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003207895.1", "gtdb_species": "s__Komagataeibacter swingsii", "ani": 85.9749, "matched_fragments": 754, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.10", "min_intra_species_ani": "95.69", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.84", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_015155755.1", "gtdb_species": "s__Komagataeibacter sp015155755", "ani": 85.5227, "matched_fragments": 701, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "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_004302915.1", "gtdb_species": "s__Komagataeibacter xylinus_C", "ani": 85.4964, "matched_fragments": 747, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "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_000285295.1", "gtdb_species": "s__Komagataeibacter europaeus", "ani": 85.4593, "matched_fragments": 751, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.91", "min_intra_species_ani": "97.46", "mean_intra_species_af": "0.85", "min_intra_species_af": "0.81", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_013155395.1", "gtdb_species": "s__Komagataeibacter melomenusus", "ani": 85.459, "matched_fragments": 724, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003207865.1", "gtdb_species": "s__Komagataeibacter sucrofermentans", "ani": 85.4389, "matched_fragments": 709, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "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_000964425.1", "gtdb_species": "s__Komagataeibacter intermedius", "ani": 85.1571, "matched_fragments": 724, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.80", "min_intra_species_ani": "99.80", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003207825.1", "gtdb_species": "s__Komagataeibacter saccharivorans", "ani": 85.089, "matched_fragments": 733, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.47", "min_intra_species_ani": "98.42", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.87", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_003207795.1", "gtdb_species": "s__Komagataeibacter nataicola", "ani": 85.062, "matched_fragments": 726, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.90", "min_intra_species_ani": "99.90", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003207815.1", "gtdb_species": "s__Komagataeibacter oboediens", "ani": 84.7861, "matched_fragments": 735, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.65", "min_intra_species_ani": "98.22", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.85", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_006538165.1", "gtdb_species": "s__Komagataeibacter diospyri", "ani": 84.5975, "matched_fragments": 732, "total_fragments": 1070, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Komagataeibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.62", "min_intra_species_ani": "98.62", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.284, "cell_length": 0.301, "doubling_h": null, "growth_tmp": 28.969, "optimum_tmp": 31.75, "optimum_ph": 5.9, "genome_size": 3790427.848, "gc_content": 60.834, "coding_genes": 3327.283, "rRNA16S_genes": 4.2, "tRNA_genes": 55.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.857, "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": 0.857, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.142, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Komagataeibacter", "melaceti" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }