{ "type": "genome", "identifier": "GCF_000367625.1", "organism": "Erwinia amylovora NBRC 12687 = CFBP 1232", "title": "Erwinia amylovora NBRC 12687 = CFBP 1232", "description": "na", "data type": "Genome sequencing and assembly", "organization": "CeBiTec", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000367625.1", "bioproject": "PRJNA224116", "biosample": "SAMEA2271944", "wgs_master": "CAPB00000000.1", "refseq_category": "na", "taxid": "1219359", "species_taxid": "552", "organism_name": "Erwinia amylovora NBRC 12687 = CFBP 1232", "infraspecific_name": "strain=type strain: CFBP 1232", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/04/12", "asm_name": "ASM36762v2", "asm_submitter": "CeBiTec", "gbrs_paired_asm": "GCA_000367625.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/367/625/GCF_000367625.1_ASM36762v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3795525", "genome_size_ungapped": "3795525", "gc_percent": "53.500000", "replicon_count": "1", "scaffold_count": "43", "contig_count": "43", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000367625.1-RS_2024_07_15", "annotation_date": "2024-07-15", "total_gene_count": "3497", "protein_coding_gene_count": "3293", "non_coding_gene_count": "88", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-04-12", "dateModified": "2013-04-12", "datePublished": "2013-04-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Erwinia amylovora NBRC 12687 = CFBP 1232" ], "sample_taxid": [ "1219359" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.076 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)": "3795367", "Number of Sequences": "42", "Longest Sequences (bp)": "328610", "N50 (bp)": "177096", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "53.6", "Number of CDSs": "3383", "Average Protein Length": "311.1", "Coding Ratio (%)": "83.2", "Number of rRNAs": "0", "Number of tRNAs": "67", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Erwinia amylovora", "strain": "strain=type strain: CFBP 1232", "accession": "GCA_000367625.2", "taxid": 552, "species_taxid": 552, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1242, "total_fragments": 1246, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Erwinia amylovora", "strain": "strain=ATCC 15580", "accession": "GCA_017161565.1", "taxid": 552, "species_taxid": 552, "relation_to_type": "type", "validated": true, "ani": 99.9912, "matched_fragments": 1246, "total_fragments": 1246, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Erwinia amylovora", "strain": "strain=NBRC 12687", "accession": "GCA_000696075.1", "taxid": 552, "species_taxid": 552, "relation_to_type": "type", "validated": true, "ani": 99.9822, "matched_fragments": 1220, "total_fragments": 1246, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Erwinia pyrifoliae", "strain": "strain=DSM 12163", "accession": "GCA_000026985.1", "taxid": 79967, "species_taxid": 79967, "relation_to_type": "type", "validated": true, "ani": 90.6857, "matched_fragments": 1075, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erwinia piriflorinigrans", "strain": "strain=CFBP 5888", "accession": "GCA_001050515.1", "taxid": 665097, "species_taxid": 665097, "relation_to_type": "type", "validated": true, "ani": 85.67, "matched_fragments": 969, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Erwinia tasmaniensis", "strain": "strain=Et1/99", "accession": "GCA_000026185.1", "taxid": 338565, "species_taxid": 338565, "relation_to_type": "type", "validated": true, "ani": 85.2339, "matched_fragments": 976, "total_fragments": 1246, "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": 81.945, "matched_fragments": 818, "total_fragments": 1246, "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": 81.8695, "matched_fragments": 809, "total_fragments": 1246, "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": 79.754, "matched_fragments": 552, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Enterobacter hormaechei", "strain": "strain=FDAARGOS 1433", "accession": "GCA_019048245.1", "taxid": 158836, "species_taxid": 158836, "relation_to_type": "suspected-type", "validated": true, "ani": 78.6889, "matched_fragments": 353, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia entomophila", "strain": "strain=A1", "accession": "GCA_021462285.1", "taxid": 42906, "species_taxid": 42906, "relation_to_type": "type", "validated": true, "ani": 78.6838, "matched_fragments": 410, "total_fragments": 1246, "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": 78.4385, "matched_fragments": 349, "total_fragments": 1246, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_017161565.1", "gtdb_species": "s__Erwinia amylovora", "ani": 99.9912, "matched_fragments": 1246, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Erwinia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.73", "min_intra_species_ani": "98.13", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.95", "num_clustered_genomes": 141, "status": "conclusive" }, { "accession": "GCF_000026985.1", "gtdb_species": "s__Erwinia pyrifoliae", "ani": 90.6923, "matched_fragments": 1074, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Erwinia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.33", "min_intra_species_ani": "98.13", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001050515.1", "gtdb_species": "s__Erwinia piriflorinigrans", "ani": 85.6701, "matched_fragments": 969, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Erwinia", "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_000026185.1", "gtdb_species": "s__Erwinia tasmaniensis", "ani": 85.2337, "matched_fragments": 976, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Erwinia", "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_001756855.1", "gtdb_species": "s__Erwinia dacicola", "ani": 82.1458, "matched_fragments": 305, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Erwinia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.47", "min_intra_species_ani": "98.24", "mean_intra_species_af": "0.66", "min_intra_species_af": "0.61", 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"status": "-" }, { "accession": "GCF_003751505.1", "gtdb_species": "s__Erwinia sp003751505", "ani": 80.9845, "matched_fragments": 670, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Erwinia", "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_018141005.1", "gtdb_species": "s__Erwinia sp001422605", "ani": 80.8407, "matched_fragments": 679, "total_fragments": 1246, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Erwinia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.39", "min_intra_species_ani": "98.36", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.155, "cell_length": 0.301, "doubling_h": 0.093, "growth_tmp": 28.0, "optimum_tmp": 33.5, "optimum_ph": null, "genome_size": 3829077.458, "gc_content": 53.072, "coding_genes": 3495.833, "rRNA16S_genes": 7.0, "tRNA_genes": 77.5, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 1.0, "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": [ "Erwinia", "amylovora", "NBRC", "12687", "=", "CFBP", "1232" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }