{ "type": "genome", "identifier": "GCF_006542375.1", "organism": "Oecophyllibacter saccharovorans", "title": "Oecophyllibacter saccharovorans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Malaya", "publication": [ {} ], "properties": { "assembly_accession": "GCF_006542375.1", "bioproject": "PRJNA224116", "biosample": "SAMN11175484", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2558360", "species_taxid": "2558360", "organism_name": "Oecophyllibacter saccharovorans", "infraspecific_name": "strain=Ha5", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/07/02", "asm_name": "ASM654237v1", "asm_submitter": "University of Malaya", "gbrs_paired_asm": "GCA_006542375.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/006/542/375/GCF_006542375.1_ASM654237v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "1945529", "genome_size_ungapped": "1945529", "gc_percent": "61.500000", "replicon_count": "2", "scaffold_count": "2", "contig_count": "2", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_006542375.1-RS_2024_12_22", "annotation_date": "2024-12-22", "total_gene_count": "1696", "protein_coding_gene_count": "1629", "non_coding_gene_count": "52", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-07-02", "dateModified": "2019-07-02", "datePublished": "2019-07-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Oecophyllibacter saccharovorans" ], "sample_taxid": [ "2558360" ], "sample_host_organism": [ "Oecophylla smaragdina" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Malaysia: Kuala Lumpur" ], "sample_host_location_id": [], "data_size": "0.542 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)": "1945529", "Number of Sequences": "2", "Longest Sequences (bp)": "1938936", "N50 (bp)": "1938936", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "61.5", "Number of CDSs": "1660", "Average Protein Length": "343.0", "Coding Ratio (%)": "87.8", "Number of rRNAs": "3", "Number of tRNAs": "45", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Oecophyllibacter saccharovorans", "strain": "strain=Ha5", "accession": "GCA_006542375.1", "taxid": 2558360, "species_taxid": 2558360, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 647, "total_fragments": 648, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Bombella apis", "strain": "strain=MRM1", "accession": "GCA_018221685.1", "taxid": 1785988, "species_taxid": 1785988, "relation_to_type": "type", "validated": true, "ani": 77.2499, "matched_fragments": 124, "total_fragments": 648, "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": 77.1986, "matched_fragments": 113, "total_fragments": 648, "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": 77.1553, "matched_fragments": 126, "total_fragments": 648, "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": 77.1273, "matched_fragments": 98, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Bombella apis", "strain": "strain=MRM1", "accession": "GCA_014878255.1", "taxid": 1785988, "species_taxid": 1785988, "relation_to_type": "type", "validated": true, "ani": 77.1256, "matched_fragments": 122, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neoasaia chiangmaiensis", "strain": "strain=NBRC 101099", "accession": "GCA_002005465.1", "taxid": 320497, "species_taxid": 320497, "relation_to_type": "type", "validated": true, "ani": 77.0755, "matched_fragments": 97, "total_fragments": 648, "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": 77.0407, "matched_fragments": 115, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter roseus", "strain": "strain=NBRC 3990", "accession": "GCA_006538885.1", "taxid": 586239, "species_taxid": 586239, "relation_to_type": "type", "validated": true, "ani": 77.012, "matched_fragments": 125, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter potus", "strain": "strain=LMG 1764", "accession": "GCA_001580675.1", "taxid": 2724927, "species_taxid": 2724927, "relation_to_type": "type", "validated": true, "ani": 76.9827, "matched_fragments": 129, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter vitians", "strain": "strain=LMG 31484", "accession": "GCA_015244565.1", "taxid": 2728102, "species_taxid": 2728102, "relation_to_type": "type", "validated": true, "ani": 76.8914, "matched_fragments": 128, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconacetobacter liquefaciens", "strain": "strain=NBRC 12388", "accession": "GCA_006539085.1", "taxid": 89584, "species_taxid": 89584, "relation_to_type": "type", "validated": true, "ani": 76.8673, "matched_fragments": 95, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Neoasaia chiangmaiensis", "strain": "strain=NBRC 101099", "accession": "GCA_007991115.1", "taxid": 320497, "species_taxid": 320497, "relation_to_type": "type", "validated": true, "ani": 76.8534, "matched_fragments": 96, "total_fragments": 648, "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": 76.8063, "matched_fragments": 123, "total_fragments": 648, "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": 76.8057, "matched_fragments": 106, "total_fragments": 648, "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": 76.782, "matched_fragments": 123, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconacetobacter liquefaciens", "strain": "strain=LMG 1382", "accession": "GCA_014174285.1", "taxid": 89584, "species_taxid": 89584, "relation_to_type": "type", "validated": true, "ani": 76.771, "matched_fragments": 100, "total_fragments": 648, "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": 76.7547, "matched_fragments": 89, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter wancherniae", "strain": "strain=NBRC 103581", "accession": "GCA_020884775.1", "taxid": 1307955, "species_taxid": 1307955, "relation_to_type": "type", "validated": true, "ani": 76.7527, "matched_fragments": 67, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter wancherniae", "strain": "strain=LMG27016", "accession": "GCA_015244585.1", "taxid": 1307955, "species_taxid": 1307955, "relation_to_type": "type", "validated": true, "ani": 76.7519, "matched_fragments": 67, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Gluconobacter wancherniae", "strain": "strain=NBRC 103581", "accession": "GCA_007988885.1", "taxid": 1307955, "species_taxid": 1307955, "relation_to_type": "type", "validated": true, "ani": 76.7519, "matched_fragments": 67, "total_fragments": 648, "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": 76.7391, "matched_fragments": 104, "total_fragments": 648, "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": 76.73, "matched_fragments": 122, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidomonas methanolica", "strain": "strain=MB58", "accession": "GCA_000617865.1", "taxid": 437, "species_taxid": 437, "relation_to_type": "type", "validated": true, "ani": 76.6889, "matched_fragments": 103, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Acidomonas methanolica", "strain": "strain=NBRC 104435", "accession": "GCA_007988925.1", "taxid": 437, "species_taxid": 437, "relation_to_type": "type", "validated": true, "ani": 76.625, "matched_fragments": 105, "total_fragments": 648, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_006542375.1", "gtdb_species": "s__Oecophyllibacter saccharovorans", "ani": 100.0, "matched_fragments": 647, "total_fragments": 648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Oecophyllibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.69", "min_intra_species_ani": "97.59", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_018221685.1", "gtdb_species": "s__Bombella apis", "ani": 77.245, "matched_fragments": 125, "total_fragments": 648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Bombella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.16", "min_intra_species_ani": "98.65", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.94", "num_clustered_genomes": 13, "status": "-" }, { "accession": "GCF_014048465.1", "gtdb_species": "s__Bombella mellum", "ani": 77.2011, "matched_fragments": 124, "total_fragments": 648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Bombella", "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_002723915.1", "gtdb_species": "s__Gluconobacter albidus", "ani": 77.1591, "matched_fragments": 99, "total_fragments": 648, "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_014635085.1", "gtdb_species": "s__Asaia siamensis", "ani": 77.1452, "matched_fragments": 101, "total_fragments": 648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Asaia", "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": 77.1298, "matched_fragments": 128, "total_fragments": 648, "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": 77.1224, "matched_fragments": 99, "total_fragments": 648, "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_002005465.1", "gtdb_species": "s__Neoasaia chiangmaiensis", "ani": 77.071, "matched_fragments": 98, "total_fragments": 648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Neoasaia", "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": "-" }, { "accession": "GCF_003207865.1", "gtdb_species": "s__Komagataeibacter sucrofermentans", "ani": 77.0599, "matched_fragments": 115, "total_fragments": 648, "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_014174275.1", "gtdb_species": "s__Gluconacetobacter takamatsuzukensis", "ani": 77.0288, "matched_fragments": 107, "total_fragments": 648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconacetobacter", "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_006538885.1", "gtdb_species": "s__Gluconobacter roseus", "ani": 77.009, "matched_fragments": 126, "total_fragments": 648, "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": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014174255.1", "gtdb_species": "s__Gluconacetobacter sacchari", "ani": 76.9463, "matched_fragments": 93, "total_fragments": 648, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Alphaproteobacteria;o__Acetobacterales;f__Acetobacteraceae;g__Gluconacetobacter", "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": 76.927, "matched_fragments": 108, "total_fragments": 648, "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_000964425.1", "gtdb_species": "s__Komagataeibacter intermedius", "ani": 76.9221, "matched_fragments": 99, "total_fragments": 648, "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_009834365.1", "gtdb_species": "s__Komagataeibacter xylinus_D", "ani": 76.9172, "matched_fragments": 119, "total_fragments": 648, "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_015244565.1", "gtdb_species": "s__Gluconobacter vitians", "ani": 76.8914, "matched_fragments": 128, "total_fragments": 648, "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_003350405.1", "gtdb_species": "s__Gluconacetobacter liquefaciens", "ani": 76.8622, "matched_fragments": 96, "total_fragments": 648, "gtdb_taxonomy": 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