title: Structural variations, gene polymorphism and expression reveal major candidate genes associated with pod and seed size variation during peanut (Arachis hypogaea L.) domestication
design: Structural variations, gene polymorphism and expression reveal major candidate genes associated with pod and seed size variation during peanut (Arachis hypogaea L.) domestication
library_construction_protocol: Fresh pods were harvested at two time points: 20 days after flowering (DAF20) and 40 days after flowering (DAF40). These stages correspond to early and middle pod development, respectively, as reported in previous studies. For each genotype and at each developmental stage, pods were collected from three independent plants that exhibited similar size and appearance. The pods were rapidly pooled together and immediately frozen in liquid nitrogen for total RNA extraction. The four genotypes were grown at the Centre d'Étude Régional pour l'Amélioration de l'Adaptation à la Sécheresse (CERAAS) under screenhouse conditions. Total RNA was extracted using RNeasy Lipid Tissue Mini kit (Qiagen), following the manufacturer's procedure. RNA quality and quantity were assessed using a TapeStation 4200 System (Aligent Technologies). cDNA libraries were constructed for each sample using 1 µg of total RNA. Different index codes were added to each sample for identification. Briefly, cDNA libraries construction was carried out as following: first, mRNA was isolated using oligo-dT attached magnetic beads. Then, mRNA was fragmented, using divalent cations under elevated temperature (65°C for 5 min), before double strand cDNA synthesis. After these steps, adenylation and adaptor ligation were performed. Subsequently, an enrichment of cDNA fragments, consisting of PCR amplification, was carried out to constitute the libraries. Finally, two equimolar pools (pool 1: all samples at DAF20 and pool 2: all samples at DAF40) of cDNA libraries were formed according to the indexes used.
identifiers.namespace: European Bioinformatics Institute
identifiers.id: E-MTAB-15520:1383-03R2S40_p