Project description:DNA 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.
Project description:As part of the Globodera pallida (potato cyst nematode) genome project weare profiling the transcriptome of the parasite across its life cycle usingRNA-Seq. . This data is part of a pre-publication release. For information on the proper use of pre-publication data shared by the Wellcome Trust Sanger Institute (including details of any publication moratoria), please see http://www.sanger.ac.uk/datasharing/
Project description:We aimed to identify loci under selection for virulence in the potato cyst nematode Globodera pallida. Therefore, two G. pallida populations with suspected virulence, designated AMPOP02 and AMPOP10, were used in a selection experiment on the resistant potato variety Seresta. The selection experiment started in 2015, going through one generation per year, leading to fourth-generation selection populations at the end of 2018. The experiment was conducted in large pots, with a population that was as large as possible. After each generation cysts were saved for a later pot-experiment. This pot experiment was conducted in 2019 where the replication of these G. pallida populations on a set of potato cultivars (amongst others the non-resistant cultivar Desiree and the resistant cultivar Seresta). The first priority with the resulting generation was quantification and thereafter the material resulting from the Desiree and Seresta propagation was frozen in liquid nitrogen for DNA isolation. For each generation/potato cultivar combination three replicates were conducted. In total we had therefore 60 samples. Unfortunately, after DNA isolation, we had material of sufficient quantity and quality to conduct DNA sequencing on 45 samples.
Project description:We explored the sex determination of Globodera pallida. To do so, we grew cuttings of the potato cultivar Desiree on Gamborg B5 medium supplemented with either 1.5 g/L or 20 g/L sucrose. 14-day-old cuttings were inoculated with 100 G. pallida E400 Rookmaker juveniles. Infected root tissue was harvested at 1, 3, 6, and 9 dpi. Also, a subsample of the ppJ2 was kept for each batch. The experiment contains four time-separated batches. Transcriptome sequencing was performed by BGI Hong Kong. Two samples (B_4.2_1,5; B_4.3_1,5) were not taken along for sequencing because of a failed library prep.
