{ "type": "genome", "identifier": "GCF_000291725.1", "organism": "Pectobacterium wasabiae CFBP 3304", "title": "Pectobacterium wasabiae CFBP 3304", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Helsinki", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000291725.1", "bioproject": "PRJNA224116", "biosample": "SAMN02471791", "wgs_master": "AKVS00000000.1", "refseq_category": "na", "taxid": "1175631", "species_taxid": "55208", "organism_name": "Pectobacterium wasabiae CFBP 3304", "infraspecific_name": "strain=CFBP 3304", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2012/08/17", "asm_name": "PecWas1.0", "asm_submitter": "University of Helsinki", "gbrs_paired_asm": "GCA_000291725.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/291/725/GCF_000291725.1_PecWas1.0", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5149301", "genome_size_ungapped": "5149301", "gc_percent": "50.500000", "replicon_count": "0", "scaffold_count": "73", "contig_count": "73", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000291725.1-RS_2024_03_28", "annotation_date": "2024-03-28", "total_gene_count": "4740", "protein_coding_gene_count": "4543", "non_coding_gene_count": "92", "pubmed_id": "23133391" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2012-08-17", "dateModified": "2012-08-17", "datePublished": "2012-08-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Pectobacterium wasabiae CFBP 3304" ], "sample_taxid": [ "1175631" ], "sample_host_organism": [ "Eutrema japonicum" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Finland: Helsinki" ], "sample_host_location_id": [], "data_size": "1.462 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)": "5149301", "Number of Sequences": "73", "Longest Sequences (bp)": "437699", "N50 (bp)": "259694", "Gap Ratio (%)": "0.000039", "GCcontent (%)": "50.6", "Number of CDSs": "4668", "Average Protein Length": "310.2", "Coding Ratio (%)": "84.4", "Number of rRNAs": "16", "Number of tRNAs": "60", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pectobacterium wasabiae", "strain": "strain=CFBP 3304", "accession": "GCA_000291725.1", "taxid": 55208, "species_taxid": 55208, "relation_to_type": "type", "validated": true, "ani": 100.0, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium parmentieri", "strain": "strain=RNS 08-42-1A", "accession": "GCA_001742145.1", "taxid": 1905730, "species_taxid": 1905730, "relation_to_type": "type", "validated": true, "ani": 93.9914, "matched_fragments": 1462, "total_fragments": 1683, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium quasiaquaticum", "strain": "strain=A477-S1-J17", "accession": "GCA_014946775.2", "taxid": 2774015, "species_taxid": 2774015, "relation_to_type": "type", "validated": true, "ani": 88.6987, "matched_fragments": 1192, "total_fragments": 1683, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium colocasium", "strain": "strain=LJ1", "accession": "GCA_020181655.1", "taxid": 2878098, "species_taxid": 2878098, "relation_to_type": "type", "validated": true, "ani": 88.0637, "matched_fragments": 1226, "total_fragments": 1683, "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": 78.6199, "matched_fragments": 403, "total_fragments": 1683, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rahnella ecdela", "strain": "strain=FRB 231", "accession": "GCA_019049625.1", "taxid": 2816250, "species_taxid": 2816250, "relation_to_type": "type", "validated": true, "ani": 78.4239, "matched_fragments": 377, "total_fragments": 1683, "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": 78.2621, "matched_fragments": 413, "total_fragments": 1683, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 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"0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000754695.1", "gtdb_species": "s__Pectobacterium brasiliense", "ani": 88.8786, "matched_fragments": 1258, "total_fragments": 1683, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pectobacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.37", "min_intra_species_ani": "95.20", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.82", "num_clustered_genomes": 92, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": 0.104, "growth_tmp": 27.0, "optimum_tmp": 26.0, "optimum_ph": 5.5, "genome_size": 5061439.75, "gc_content": 50.6, "coding_genes": 4392.0, "rRNA16S_genes": 7.0, "tRNA_genes": 77.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": 0.0, "facultative_respiration": 1.0, "anaerobic_respiration": 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