{ "type": "genome", "identifier": "GCF_002953195.1", "organism": "Mixta gaviniae", "title": "Mixta gaviniae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Zurich", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002953195.1", "bioproject": "PRJNA224116", "biosample": "SAMN08369925", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "665914", "species_taxid": "665914", "organism_name": "Mixta gaviniae", "infraspecific_name": "strain=DSM 22758", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/02/04", "asm_name": "ASM295319v1", "asm_submitter": "University of Zurich", "gbrs_paired_asm": "GCA_002953195.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/953/195/GCF_002953195.1_ASM295319v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4527605", "genome_size_ungapped": "4527605", "gc_percent": "58.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002953195.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "4267", "protein_coding_gene_count": "4001", "non_coding_gene_count": "116", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-02-04", "dateModified": "2018-02-04", "datePublished": "2018-02-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Mixta gaviniae" ], "sample_taxid": [ "665914" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Switzerland" ], "sample_host_location_id": [], "data_size": "1.262 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4527605", "Number of Sequences": "1", "Longest Sequences (bp)": "4527605", "N50 (bp)": "4527605", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "58.0", "Number of CDSs": "4232", "Average Protein Length": "306.8", "Coding Ratio (%)": "86.0", "Number of rRNAs": "22", "Number of tRNAs": "90", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Mixta gaviniae", "strain": "strain=DSM 22758", "accession": "GCA_002953195.1", "taxid": 665914, "species_taxid": 665914, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1508, "total_fragments": 1509, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Mixta calida", "strain": "strain=DSM 22759", "accession": "GCA_002953215.1", "taxid": 665913, "species_taxid": 665913, "relation_to_type": "type", "validated": true, "ani": 90.5311, "matched_fragments": 1253, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mixta calida", "strain": "strain=LMG 25383", "accession": "GCA_002095355.1", "taxid": 665913, "species_taxid": 665913, "relation_to_type": "type", "validated": true, "ani": 90.4238, "matched_fragments": 1127, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mixta tenebrionis", "strain": "strain=BIT-26", "accession": "GCA_006517625.1", "taxid": 2562439, "species_taxid": 2562439, "relation_to_type": "type", "validated": true, "ani": 85.6095, "matched_fragments": 1093, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea septica", "strain": "strain=LMG 5345", "accession": "GCA_002095575.1", "taxid": 472695, "species_taxid": 472695, "relation_to_type": "type", "validated": true, "ani": 82.0427, "matched_fragments": 865, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea latae", "strain": "strain=AS1", "accession": "GCA_002077695.1", "taxid": 1964541, "species_taxid": 1964541, "relation_to_type": "type", "validated": true, "ani": 81.9405, "matched_fragments": 941, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erwinia aphidicola", "strain": "strain=X001", "accession": "GCA_024169515.1", "taxid": 68334, "species_taxid": 68334, "relation_to_type": "type", "validated": true, "ani": 80.4006, "matched_fragments": 814, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea deleyi", "strain": "strain=LMG 24200", "accession": "GCA_002095375.1", "taxid": 470932, "species_taxid": 470932, "relation_to_type": "type", "validated": true, "ani": 80.374, "matched_fragments": 774, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erwinia aphidicola", "strain": "strain=JCM 21238", "accession": "GCA_014773485.1", "taxid": 68334, "species_taxid": 68334, "relation_to_type": "type", "validated": true, "ani": 80.0964, "matched_fragments": 820, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erwinia phyllosphaerae", "strain": "strain=CMYE1", "accession": "GCA_019132875.1", "taxid": 2853256, "species_taxid": 2853256, "relation_to_type": "type", "validated": true, "ani": 80.0519, "matched_fragments": 720, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia nevei", "strain": "strain=S15", "accession": "GCA_008364245.1", "taxid": 2703794, "species_taxid": 2703794, "relation_to_type": "type", "validated": true, "ani": 79.8776, "matched_fragments": 711, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Siccibacter turicensis", "strain": "strain=LMG 23730", "accession": "GCA_000463155.2", "taxid": 357233, "species_taxid": 357233, "relation_to_type": "type", "validated": true, "ani": 79.7027, "matched_fragments": 660, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cronobacter sakazakii", "strain": "strain=ATCC 29544", "accession": "GCA_001971035.1", "taxid": 28141, "species_taxid": 28141, "relation_to_type": "type", "validated": true, "ani": 79.4598, "matched_fragments": 660, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea stewartii subsp. indologenes", "strain": "strain=LMG 2632", "accession": "GCA_000757405.2", "taxid": 66270, "species_taxid": 66269, "relation_to_type": "type", "validated": true, "ani": 79.3533, "matched_fragments": 581, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter roggenkampii", "strain": "strain=DSM 16690", "accession": "GCA_024390995.1", "taxid": 1812935, "species_taxid": 1812935, "relation_to_type": "type", "validated": true, "ani": 79.3167, "matched_fragments": 593, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter wuhouensis", "strain": "strain=WCHEW120002", "accession": "GCA_004331265.1", "taxid": 2529381, "species_taxid": 2529381, "relation_to_type": "type", "validated": true, "ani": 79.0492, "matched_fragments": 584, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella cyperi", "strain": "strain=FJAT-53720", "accession": "GCA_017354985.1", "taxid": 2814292, "species_taxid": 2814292, "relation_to_type": "type", "validated": true, "ani": 77.8749, "matched_fragments": 73, "total_fragments": 1509, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 98.96, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002953195.1", "gtdb_species": "s__Mixta gaviniae", "ani": 100.0, "matched_fragments": 1508, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Mixta", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.91", "min_intra_species_ani": "99.91", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_002953215.1", "gtdb_species": "s__Mixta calida", "ani": 90.5311, "matched_fragments": 1253, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Mixta", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.65", "min_intra_species_ani": "99.42", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCF_006517625.1", "gtdb_species": "s__Mixta tenebrionis", "ani": 85.6095, "matched_fragments": 1093, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Mixta", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.45", "min_intra_species_ani": "99.45", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002895925.1", "gtdb_species": "s__Mixta theicola", "ani": 84.8302, "matched_fragments": 1054, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Mixta", "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_009914055.1", "gtdb_species": "s__Mixta intestinalis", "ani": 84.5153, "matched_fragments": 1088, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Mixta", "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_002101395.1", "gtdb_species": "s__Mixta alhagi", "ani": 84.3755, "matched_fragments": 1109, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Mixta", "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_002858805.1", "gtdb_species": "s__Chimaeribacter arupi", "ani": 80.0923, "matched_fragments": 670, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Chimaeribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.29", "min_intra_species_ani": "99.19", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_001654985.1", "gtdb_species": "s__Kluyvera georgiana", "ani": 79.9439, "matched_fragments": 568, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Kluyvera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.06", "min_intra_species_ani": "98.06", "mean_intra_species_af": "0.84", "min_intra_species_af": "0.84", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_015234305.1", "gtdb_species": "s__Superficieibacter sp900766525", "ani": 79.7963, "matched_fragments": 566, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Superficieibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.26", "min_intra_species_ani": "96.26", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.86", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002915575.1", "gtdb_species": "s__Superficieibacter electus", "ani": 79.7514, "matched_fragments": 502, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Superficieibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014168815.1", "gtdb_species": "s__Kluyvera ascorbata_B", "ani": 79.3885, "matched_fragments": 558, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Kluyvera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.36", "min_intra_species_ani": "99.08", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 9, "status": "-" }, { "accession": "GCF_008801695.1", "gtdb_species": "s__Pantoea stewartii", "ani": 79.3523, "matched_fragments": 556, "total_fragments": 1509, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.82", "min_intra_species_ani": "98.55", "mean_intra_species_af": "0.82", "min_intra_species_af": "0.77", "num_clustered_genomes": 34, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": null, "optimum_tmp": null, "optimum_ph": null, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": null, "sporulation": null, "motility": null, "range_salinity": null, "facultative_respiration": null, "anaerobic_respiration": null, "aerobic_respiration": null, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "bacillus_cell_shape": null, "coccus_cell_shape": null, "filament_cell_shape": null, "coccobacillus_cell_shape": null, "vibrio_cell_shape": null, "spiral_cell_shape": null }, "_genome_taxon": [ "Mixta", "gaviniae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }