biostudies-arrayexpressMark SterkenGlobodera pallidahttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-16285DNA sequencing of nine Globodera pallida populations selected either for four generations on the resistant potato variety Seresta (S4), or, as a control, for one generation on the susceptible variety Desiree (D). Seresta contains GpaV from Solanum vernei as a major resistance against G. pallida. These nine populations were obtained from Dutch potato fields, where they previous to the further selection already showed some degree of virulence on resistant potato varieties. The goal of the experiment was to identify polymorphic loci in the genome associated with the selection on Seresta.biostudies-arrayexpressSample Collection - Nine Globodera pallida field populations were selected for four consecutive generations on the potato variety Seresta. DNA of approximately 40 cysts from the first and last generation of the selection experiment was used for DNA extraction.Library Construction - 1. DNA fragmentation 2. Size selection 3. End repair and \"A\" tailing 4. Adapter ligation 5. Product size selection 6. PCR reaction 7. Short-Insert Library QCNucleic Acid Extraction - The 40 cysts were crushed by bead-beating, lysed (Holterman et al., 2006), after which DNA was extracted using phenol/chloroform/isoamyl alcohol.Sequencing - DNA was sequenced by BGI Genomics on a Illumina DNBseq platform, generating an average of 258 million 150bp paired end reads, resulting in an average coverage of 197x.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesData Transformation - Sequencing data was mapped to the G. pallida Rookmaker genome (PRJEB91928) and variants were called using the published pipeline (https://git.wur.nl/stefan.vanderuitenbeek/dnaseq_variant_calling_snakemake_pipeline).MetabolomicsUnknownTranscriptomicsGenomicsProteomicsDNBSEQ-T7DNA-seqGlobodera pallidaStefan van de RuitenbeekArno SchavelingMark SterkenNike SoffreeCasper Van SchaikfalseDNAseq of nine Seresta-selected and unselected Globodera pallida populationsDNA sequencing of nine Globodera pallida populations selected either for four generations on the resistant potato variety Seresta (S4), or, as a control, for one generation on the susceptible variety Desiree (D). Seresta contains GpaV from Solanum vernei as a major resistance against G. pallida. These nine populations were obtained from Dutch potato fields, where they previous to the further selection already showed some degree of virulence on resistant potato varieties. The goal of the experiment was to identify polymorphic loci in the genome associated with the selection on Seresta.2026-03-16T00:00:00Z2026-03-16T02:03:23.37Z2025-11-25T00:55:35.734ZE-MTAB-16285ERP185578EFO_0002944EFO_0004170EFO_0002693EFO_0005518EFO_0003816EFO_0004184