{ "type": "genome", "identifier": "GCF_001038685.1", "organism": "Pectobacterium atrosepticum ICMP 1526", "title": "Pectobacterium atrosepticum ICMP 1526", "description": "na", "data type": "Genome sequencing and assembly", "organization": "The New Zealand Institute for Plant & Food Research", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001038685.1", "bioproject": "PRJNA224116", "biosample": "SAMN03780058", "wgs_master": "ALIV00000000.1", "refseq_category": "na", "taxid": "1076138", "species_taxid": "29471", "organism_name": "Pectobacterium atrosepticum ICMP 1526", "infraspecific_name": "strain=ICMP 1526", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/06/24", "asm_name": "ASM103868v1", "asm_submitter": "The New Zealand Institute for Plant & Food Research", "gbrs_paired_asm": "GCA_001038685.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/038/685/GCF_001038685.1_ASM103868v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4869384", "genome_size_ungapped": "4869384", "gc_percent": "51.000000", "replicon_count": "0", "scaffold_count": "33", "contig_count": "33", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001038685.1-RS_2024_12_10", "annotation_date": "2024-12-10", "total_gene_count": "4428", "protein_coding_gene_count": "4253", "non_coding_gene_count": "81", "pubmed_id": "26251497" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-06-24", "dateModified": "2015-06-24", "datePublished": "2015-06-24", "_annotation": { "sample_count": 1, "sample_organism": [ "Pectobacterium atrosepticum ICMP 1526" ], "sample_taxid": [ "1076138" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "New Zealand" ], "sample_host_location_id": [], "data_size": "1.387 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)": "4869384", "Number of Sequences": "33", "Longest Sequences (bp)": "1418602", "N50 (bp)": "797800", "Gap Ratio (%)": "0.000103", "GCcontent (%)": "50.9", "Number of CDSs": "4341", "Average Protein Length": "318.1", "Coding Ratio (%)": "85.1", "Number of rRNAs": "4", "Number of tRNAs": "68", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pectobacterium atrosepticum", "strain": "strain=ICMP 1526", "accession": "GCA_001038685.1", "taxid": 29471, "species_taxid": 29471, 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"ani": 92.0795, "matched_fragments": 1204, "total_fragments": 1611, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium zantedeschiae", "strain": "strain=9M", "accession": "GCA_004137795.1", "taxid": 2034769, "species_taxid": 2034769, "relation_to_type": "type", "validated": true, "ani": 91.333, "matched_fragments": 1283, "total_fragments": 1611, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium wasabiae", "strain": "strain=CFBP 3304", "accession": "GCA_000291725.1", "taxid": 55208, "species_taxid": 55208, "relation_to_type": "type", "validated": true, "ani": 90.0572, "matched_fragments": 1209, "total_fragments": 1611, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium wasabiae", "strain": "strain=CFBP 3304", "accession": "GCA_001742185.1", "taxid": 55208, "species_taxid": 55208, "relation_to_type": "type", "validated": true, "ani": 90.0316, "matched_fragments": 1230, "total_fragments": 1611, "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": 89.8303, "matched_fragments": 1235, "total_fragments": 1611, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pectobacterium polaris", "strain": "strain=NIBIO1006", "accession": "GCA_002307355.1", "taxid": 2042057, "species_taxid": 2042057, "relation_to_type": "type", "validated": true, "ani": 89.7961, "matched_fragments": 1276, "total_fragments": 1611, "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": 89.3729, "matched_fragments": 1145, "total_fragments": 1611, "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": 88.5127, "matched_fragments": 1231, "total_fragments": 1611, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serratia nevei", "strain": "strain=S15", "accession": "GCA_008364245.1", "taxid": 2703794, "species_taxid": 2703794, "relation_to_type": "type", "validated": true, "ani": 78.7054, "matched_fragments": 357, "total_fragments": 1611, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rahnella bonaserana", "strain": "strain=H11b", "accession": "GCA_019049675.1", "taxid": 2816248, "species_taxid": 2816248, "relation_to_type": "type", "validated": true, "ani": 78.3356, "matched_fragments": 362, "total_fragments": 1611, "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": 78.323, "matched_fragments": 341, "total_fragments": 1611, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aliagarivorans marinus", "strain": "strain=DSM 23064", "accession": "GCA_000429485.1", "taxid": 561965, "species_taxid": 561965, "relation_to_type": "type", "validated": true, "ani": 76.2523, "matched_fragments": 50, "total_fragments": 1611, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_019056595.1", "gtdb_species": "s__Pectobacterium atrosepticum", "ani": 99.9764, "matched_fragments": 1587, "total_fragments": 1611, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Pectobacterium", 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