{ "type": "genome", "identifier": "GCF_002095385.1", "organism": "Pantoea eucrina", "title": "Pantoea eucrina", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Pretoria", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002095385.1", "bioproject": "PRJNA224116", "biosample": "SAMN05757669", "wgs_master": "MIPP00000000.1", "refseq_category": "na", "taxid": "472693", "species_taxid": "472693", "organism_name": "Pantoea eucrina", "infraspecific_name": "strain=LMG 5346", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/04/18", "asm_name": "ASM209538v1", "asm_submitter": "University of Pretoria", "gbrs_paired_asm": "GCA_002095385.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/095/385/GCF_002095385.1_ASM209538v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3892376", "genome_size_ungapped": "3892376", "gc_percent": "56.500000", "replicon_count": "0", "scaffold_count": "109", "contig_count": "109", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002095385.1-RS_2024_04_25", "annotation_date": "2024-04-25", "total_gene_count": "3752", "protein_coding_gene_count": "3455", "non_coding_gene_count": "76", "pubmed_id": "28255640" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-04-18", "dateModified": "2017-04-18", "datePublished": "2017-04-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Pantoea eucrina" ], "sample_taxid": [ "472693" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "1.100 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)": "3892376", "Number of Sequences": "109", "Longest Sequences (bp)": "276365", "N50 (bp)": "77198", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "56.3", "Number of CDSs": "3709", "Average Protein Length": "298.2", "Coding Ratio (%)": "85.2", "Number of rRNAs": "3", "Number of tRNAs": "66", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pantoea eucrina", "strain": "strain=LMG 5346", "accession": "GCA_002095385.1", "taxid": 472693, "species_taxid": 472693, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1247, "total_fragments": 1251, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pantoea dispersa", "strain": "strain=CCUG 25232T", "accession": "GCA_008692915.1", "taxid": 59814, "species_taxid": 59814, "relation_to_type": "type", "validated": true, "ani": 83.261, "matched_fragments": 920, "total_fragments": 1251, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea dispersa", "strain": "strain=DSM 30073", "accession": "GCA_014155765.1", "taxid": 59814, "species_taxid": 59814, "relation_to_type": "type", "validated": true, "ani": 83.2584, "matched_fragments": 944, "total_fragments": 1251, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea wallisii", "strain": "strain=LMG 26277", "accession": "GCA_002095485.1", "taxid": 1076551, "species_taxid": 1076551, "relation_to_type": "type", "validated": true, "ani": 82.8996, "matched_fragments": 902, "total_fragments": 1251, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea endophytica", "strain": "strain=596", "accession": 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"relation_to_type": "type", "validated": true, "ani": 81.3149, "matched_fragments": 782, "total_fragments": 1251, "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": 81.0932, "matched_fragments": 764, "total_fragments": 1251, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea deleyi", "strain": "strain=LMG24200", "accession": "GCA_022647325.1", "taxid": 470932, "species_taxid": 470932, "relation_to_type": "type", "validated": true, "ani": 81.041, "matched_fragments": 830, "total_fragments": 1251, "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": 79.9435, 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"min_intra_species_ani": "99.35", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_014155765.1", "gtdb_species": "s__Pantoea dispersa", "ani": 83.249, "matched_fragments": 945, "total_fragments": 1251, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.93", "min_intra_species_ani": "96.36", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.86", "num_clustered_genomes": 38, "status": "-" }, { "accession": "GCF_007833795.1", "gtdb_species": "s__Pantoea dispersa_B", "ani": 83.1781, "matched_fragments": 946, "total_fragments": 1251, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", 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"min_intra_species_af": "0.89", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_002858935.1", "gtdb_species": "s__Pantoea endophytica", "ani": 81.913, "matched_fragments": 856, "total_fragments": 1251, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.84", "min_intra_species_ani": "95.24", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.88", "num_clustered_genomes": 7, "status": "-" }, { "accession": "GCF_000468095.1", "gtdb_species": "s__Pantoea sp000468095", "ani": 81.2393, "matched_fragments": 714, "total_fragments": 1251, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.52", "min_intra_species_ani": "98.52", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.021, "cell_length": 0.214, "doubling_h": null, "growth_tmp": 29.0, "optimum_tmp": 33.875, "optimum_ph": null, "genome_size": 3916126.5, "gc_content": 56.26, "coding_genes": 3801.881, "rRNA16S_genes": 6.428, "tRNA_genes": 74.931, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 1.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.0, "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": [ "Pantoea", "eucrina" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }