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Providing genomic tools to increase the efficiency of molecular breeding for complex traits in pepper

Abstract : The aim of the SPICY European project ("Smart tools for Prediction and Improvement of Crop Yield", KBBE-2008-211 347) is to develop a suite of tools for molecular breeding of crop plants for sustainable and competitive agriculture. The model crop is Pepper (Capsicum annuum). A crop growth model will be constructed to predict the phenotypic response of a genotype under a range of environmental conditions. Molecular markers of the Quantitative Trait Loci (QTLs) for yield-related traits and for model parameters are needed for phenotype prediction. To improve the estimation of allelic values at QTLs, functional markers (sequence polymorphism controlling the phenotypic variation) are expected instead of QTL flanking markers. The genomic part of this project exptores functions underlying QTLs by quantitative genomics using both a priori (genes reported in literature as playing an important role in growth responses) and global gene expression polymorphism that is genes that are differentially expressed in the RIL population, (eQTL) . SNPs in the genes of interest will be obtained from high-throughput sequencing and mapped in pepper genome by SNPlex using the 297 RIL population. SNP positions in the genetic map will be confronted with positions of eQTLs and trait QTLs. Colocalization of a structural gene (SNP), a trait QTL and an eQTL will argue in favour of causal relationships between the identified gene and the trait. Because functional validation cannot be achieved for many genes in pepper, validation will be attempted through genetic association in the pepper germplasm collection. Successful candidate genes will provide us with potential allelic values for phenotype prediction.
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Contributor : Migration Prodinra <>
Submitted on : Thursday, June 4, 2020 - 3:46:40 AM
Last modification on : Friday, April 2, 2021 - 3:31:37 AM


  • HAL Id : hal-02758498, version 1
  • PRODINRA : 39770



Maryse Nicolaï, Anne-Marie Sage-Palloix, Ghislaine Nemouchi, Bruno Savio, A. Vercauteren, et al.. Providing genomic tools to increase the efficiency of molecular breeding for complex traits in pepper. 14. Eucarpia Meeting on Genetics and Breeding of Capsicum and Eggplant, Aug 2010, Valencia, Spain. ⟨hal-02758498⟩



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