{ "type": "genome", "identifier": "GCF_014155765.1", "organism": "Pantoea dispersa", "title": "Pantoea dispersa", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Beijing Academy of Agriculture and Forestry Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014155765.1", "bioproject": "PRJNA224116", "biosample": "SAMN10743380", "wgs_master": "SCKT00000000.1", "refseq_category": "na", "taxid": "59814", "species_taxid": "59814", "organism_name": "Pantoea dispersa", "infraspecific_name": "strain=DSM 30073", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/08/11", "asm_name": "ASM1415576v1", "asm_submitter": "Beijing Academy of Agriculture and Forestry Sciences", "gbrs_paired_asm": "GCA_014155765.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/155/765/GCF_014155765.1_ASM1415576v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4922283", "genome_size_ungapped": "4921844", "gc_percent": "57.500000", "replicon_count": "0", "scaffold_count": "33", "contig_count": "33", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014155765.1-RS_2024_09_19", "annotation_date": "2024-09-19", "total_gene_count": "4654", "protein_coding_gene_count": "4490", "non_coding_gene_count": "84", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-08-11", "dateModified": "2020-08-11", "datePublished": "2020-08-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Pantoea dispersa" ], "sample_taxid": [ "59814" ], "sample_host_organism": [ "corn" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not collected" ], "sample_host_location_id": [], "data_size": "1.378 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)": "4922283", "Number of Sequences": "33", "Longest Sequences (bp)": "1372650", "N50 (bp)": "691092", "Gap Ratio (%)": "0.008919", "GCcontent (%)": "57.6", "Number of CDSs": "4605", "Average Protein Length": "312.3", "Coding Ratio (%)": "87.6", "Number of rRNAs": "3", "Number of tRNAs": "68", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pantoea dispersa", "strain": "strain=DSM 30073", "accession": "GCA_014155765.1", "taxid": 59814, "species_taxid": 59814, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1623, "total_fragments": 1625, "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": 99.9835, "matched_fragments": 1591, "total_fragments": 1625, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pantoea wallisii", "strain": "strain=LMG 26277", "accession": "GCA_002095485.1", "taxid": 1076551, "species_taxid": 1076551, "relation_to_type": "type", "validated": true, "ani": 85.6132, "matched_fragments": 1162, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea endophytica", "strain": "strain=596", "accession": "GCA_002858935.1", "taxid": 92488, "species_taxid": 92488, "relation_to_type": "type", "validated": true, "ani": 84.6641, "matched_fragments": 1211, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea rodasii", "strain": "strain=LMG 26273", "accession": "GCA_002095465.1", "taxid": 1076549, "species_taxid": 1076549, "relation_to_type": "type", "validated": true, "ani": 84.0463, "matched_fragments": 1180, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea rodasii", "strain": "strain=DSM 26611", "accession": "GCA_002811195.1", "taxid": 1076549, "species_taxid": 1076549, "relation_to_type": "type", "validated": true, "ani": 84.0108, "matched_fragments": 1193, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea cypripedii", "strain": "strain=LMG 2657", "accession": "GCA_002095535.1", "taxid": 55209, "species_taxid": 55209, "relation_to_type": "type", "validated": true, "ani": 83.3887, "matched_fragments": 1109, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pantoea eucrina", "strain": "strain=LMG 5346", "accession": "GCA_002095385.1", "taxid": 472693, "species_taxid": 472693, "relation_to_type": "type", "validated": true, "ani": 83.1954, "matched_fragments": 937, "total_fragments": 1625, "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": 81.9362, "matched_fragments": 970, "total_fragments": 1625, "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": 80.4479, "matched_fragments": 828, "total_fragments": 1625, "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": 80.2022, "matched_fragments": 777, "total_fragments": 1625, "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": 79.3857, "matched_fragments": 679, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia bockelmannii", "strain": "strain=S3", "accession": "GCA_008011855.1", "taxid": 2703793, "species_taxid": 2703793, "relation_to_type": "type", "validated": true, "ani": 79.3819, "matched_fragments": 639, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella khirikhana", "strain": "strain=TH2012", "accession": "GCA_003957745.1", "taxid": 1965282, "species_taxid": 1965282, "relation_to_type": "type", "validated": true, "ani": 76.4006, "matched_fragments": 96, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanimonas marisflavi", "strain": "strain=102-Na3", "accession": "GCA_003049725.1", "taxid": 2059724, "species_taxid": 2059724, "relation_to_type": "type", "validated": true, "ani": 76.3192, "matched_fragments": 117, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquitalea magnusonii", "strain": "strain=DSM 25134", "accession": "GCA_003202035.1", "taxid": 332411, "species_taxid": 332411, "relation_to_type": "suspected-type", "validated": true, "ani": 75.6563, "matched_fragments": 78, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium violaceum", "strain": "strain=NCTC9757", "accession": "GCA_900446805.1", "taxid": 536, "species_taxid": 536, "relation_to_type": "type", "validated": true, "ani": 75.29, "matched_fragments": 96, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cupriavidus agavae", "strain": "strain=ASC-9842", "accession": "GCA_004217045.1", "taxid": 1001822, "species_taxid": 1001822, "relation_to_type": "type", "validated": true, "ani": 75.2661, "matched_fragments": 85, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium violaceum", "strain": "strain=ATCC 12472", "accession": "GCA_000007705.1", "taxid": 536, "species_taxid": 536, "relation_to_type": "type", "validated": true, "ani": 75.2484, "matched_fragments": 99, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chromobacterium sphagni", "strain": "strain=IIBBL 14B-1", "accession": "GCA_001855555.1", "taxid": 1903179, "species_taxid": 1903179, "relation_to_type": "type", "validated": true, "ani": 75.109, "matched_fragments": 79, "total_fragments": 1625, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014155765.1", "gtdb_species": "s__Pantoea dispersa", "ani": 100.0, "matched_fragments": 1623, "total_fragments": 1625, "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": "conclusive" }, { "accession": "GCF_002095485.1", "gtdb_species": "s__Pantoea wallisii", "ani": 85.5937, "matched_fragments": 1164, "total_fragments": 1625, "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", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_007833795.1", "gtdb_species": "s__Pantoea dispersa_B", "ani": 85.2493, "matched_fragments": 1207, "total_fragments": 1625, "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", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_002858935.1", "gtdb_species": "s__Pantoea endophytica", "ani": 84.662, "matched_fragments": 1211, "total_fragments": 1625, "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_900068835.1", "gtdb_species": "s__Pantoea ludwigii_B", "ani": 84.5813, "matched_fragments": 1220, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.17", "min_intra_species_ani": "96.60", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 10, "status": "-" }, { "accession": "GCF_000759475.1", "gtdb_species": "s__Pantoea rwandensis_B", "ani": 84.3604, "matched_fragments": 1082, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.54", "min_intra_species_ani": "98.22", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001187905.1", "gtdb_species": "s__Pantoea sp001187905", "ani": 84.1477, "matched_fragments": 1188, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.42", "min_intra_species_ani": "98.35", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_016625195.1", "gtdb_species": "s__Pantoea sp016625195", "ani": 84.0883, "matched_fragments": 1182, "total_fragments": 1625, "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", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_001506165.1", "gtdb_species": "s__Pantoea vagans_C", "ani": 84.0082, "matched_fragments": 1074, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.95", "min_intra_species_ani": "97.99", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.89", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002095535.1", "gtdb_species": "s__Pantoea cypripedii", "ani": 83.3729, "matched_fragments": 1111, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_011395035.1", "gtdb_species": "s__Pantoea cypripedii_A", "ani": 83.3196, "matched_fragments": 1097, "total_fragments": 1625, "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", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_002095385.1", "gtdb_species": "s__Pantoea eucrina", "ani": 83.1904, "matched_fragments": 938, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.84", "min_intra_species_ani": "96.54", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.90", "num_clustered_genomes": 17, "status": "-" }, { "accession": "GCF_000175935.2", "gtdb_species": "s__Pantoea sp000175935", "ani": 83.0649, "matched_fragments": 1102, "total_fragments": 1625, "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", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_001691555.1", "gtdb_species": "s__Pantoea eucrina_A", "ani": 82.9242, "matched_fragments": 968, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pantoea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.39", "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_000735365.1", "gtdb_species": "s__Kluyvera ascorbata", "ani": 79.523, "matched_fragments": 508, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Kluyvera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.94", "min_intra_species_ani": "97.70", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.89", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_018323985.1", "gtdb_species": "s__Enterobacter_D kobei_A", "ani": 79.4568, "matched_fragments": 602, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter_D", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.37", "min_intra_species_ani": "98.44", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.93", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_017299535.1", "gtdb_species": "s__Serratia marcescens", "ani": 79.438, "matched_fragments": 654, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Serratia", "ani_circumscription_radius": 96.8494, "mean_intra_species_ani": "99.42", "min_intra_species_ani": "98.47", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.85", "num_clustered_genomes": 72, "status": "-" }, { "accession": "GCF_016742975.1", "gtdb_species": "s__Serratia nevei", "ani": 79.2568, "matched_fragments": 605, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Serratia", "ani_circumscription_radius": 96.1913, "mean_intra_species_ani": "97.82", "min_intra_species_ani": "96.26", "mean_intra_species_af": "0.83", "min_intra_species_af": "0.75", "num_clustered_genomes": 139, "status": "-" }, { "accession": "GCF_013927005.1", "gtdb_species": "s__Enterobacter sp013927005", "ani": 79.2545, "matched_fragments": 499, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Enterobacter", "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_002915575.1", "gtdb_species": "s__Superficieibacter electus", "ani": 78.9443, "matched_fragments": 461, "total_fragments": 1625, "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_013911085.1", "gtdb_species": "s__Aquitalea magnusonii_C", "ani": 75.5537, "matched_fragments": 60, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chromobacteriaceae;g__Aquitalea", "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_000426345.1", "gtdb_species": "s__Cupriavidus sp000426345", "ani": 75.1909, "matched_fragments": 109, "total_fragments": 1625, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Cupriavidus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.93", "min_intra_species_ani": "98.88", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "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": 4814566.727, "gc_content": 53.712, "coding_genes": 3801.881, "rRNA16S_genes": 6.428, "tRNA_genes": 74.931, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.944, "range_salinity": null, "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": 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", "dispersa" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }