{ "type": "genome", "identifier": "GCF_017826695.1", "organism": "Pseudomonas alliivorans", "title": "Pseudomonas alliivorans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Georgia", "publication": [ {} ], "properties": { "assembly_accession": "GCF_017826695.1", "bioproject": "PRJNA224116", "biosample": "SAMN17838827", "wgs_master": "JAFFZW000000000.1", "refseq_category": "reference genome", "taxid": "2810613", "species_taxid": "2810613", "organism_name": "Pseudomonas alliivorans", "infraspecific_name": "strain=20GA0068", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/04/07", "asm_name": "ASM1782669v1", "asm_submitter": "University of Georgia", "gbrs_paired_asm": "GCA_017826695.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/017/826/695/GCF_017826695.1_ASM1782669v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5839609", "genome_size_ungapped": "5839609", "gc_percent": "59.000000", "replicon_count": "0", "scaffold_count": "31", "contig_count": "31", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_017826695.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "5304", "protein_coding_gene_count": "5134", "non_coding_gene_count": "70", "pubmed_id": "34800898" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-04-07", "dateModified": "2021-04-07", "datePublished": "2021-04-07", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudomonas alliivorans" ], "sample_taxid": [ "2810613" ], "sample_host_organism": [ "Allium cepa" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: Georgia" ], "sample_host_location_id": [], "data_size": "1.645 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)": "5839609", "Number of Sequences": "31", "Longest Sequences (bp)": "1052446", "N50 (bp)": "487261", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "59.1", "Number of CDSs": "5289", "Average Protein Length": "325.3", "Coding Ratio (%)": "88.4", "Number of rRNAs": "1", "Number of tRNAs": "59", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudomonas viridiflava", "strain": "strain=DSM 6694", "accession": "GCA_001305955.1", "taxid": 33069, "species_taxid": 33069, "relation_to_type": "type", "validated": true, "ani": 92.0174, "matched_fragments": 1656, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas syringae group genomosp. 3", "strain": "strain=ICMP3956", "accession": "GCA_001400635.1", "taxid": 251701, "species_taxid": 251701, "relation_to_type": "pathovar", "validated": true, "ani": 91.8761, "matched_fragments": 1605, "total_fragments": 1932, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas amygdali", "strain": "strain=DSM 105780", "accession": "GCA_022828345.1", "taxid": 47877, "species_taxid": 47877, "relation_to_type": "pathovar", "validated": true, "ani": 83.6112, "matched_fragments": 1335, "total_fragments": 1932, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudomonas syringae group genomosp. 7", "strain": "strain=ICMP 4091", "accession": "GCA_022557255.1", "taxid": 251699, "species_taxid": 251699, "relation_to_type": "pathovar", "validated": true, "ani": 83.3292, "matched_fragments": 1345, "total_fragments": 1932, 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"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_001466965.1", "gtdb_species": "s__Pseudomonas_E syringae_Q", "ani": 83.908, "matched_fragments": 1310, "total_fragments": 1932, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Pseudomonadales;f__Pseudomonadaceae;g__Pseudomonas_E", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.91", "min_intra_species_ani": "98.87", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.248, "cell_length": 0.186, "doubling_h": -0.025, "growth_tmp": 28.767, "optimum_tmp": 27.972, "optimum_ph": 7.258, "genome_size": 5663774.24, "gc_content": 60.938, "coding_genes": 5204.79, "rRNA16S_genes": 5.319, "tRNA_genes": 67.35, "gram_stain": 0.0, "sporulation": 0.013, "motility": 0.975, 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