Highly-multiplexed SNP genotyping for genetic mapping and germplasm diversity studies in pea

Background: Single Nucleotide Polymorphisms (SNPs) can be used as genetic markers for applications such as genetic diversity studies or genetic mapping. New technologies now allow genotyping hundreds to thousands of SNPs in a single reaction. In order to evaluate the potential of these technologies in pea, we selected a custom 384-SNP set using SNPs discovered in Pisum through the resequencing of gene fragments in different genotypes and by compiling genomic sequence data present in databases. We then designed an Illumina GoldenGate assay to genotype both a Pisum germplasm collection and a genetic mapping population with the SNP set. Results: We obtained clear allelic data for more than 92% of the SNPs (356 out of 384). Interestingly, the technique was successful for all the genotypes present in the germplasm collection, including those from species or subspecies different from the P. sativum ssp sativum used to generate sequences. By genotyping the mapping population with the SNP set, we obtained a genetic map and map positions for 37 new gene markers. Conclusion: Our results show that the Illumina GoldenGate assay can be used successfully for high-throughput SNP genotyping of diverse germplasm in pea. This genotyping approach will simplify genotyping procedures for association mapping or diversity studies purposes and open new perspectives in legume genomics

Évolution rétrospective du risque gélif hivernal en climat tempéré suite eu réchauffement climatique.

10 pagesNational audienc

Frost stress evolution and winter pea ideotype in the context of climate warming at a regional scale

Pea (Pisum sativum L.) is an important crop in temperate regions for its high seed protein concentration that is particularly sensitive to abiotic stresses. The abrupt temperature increase known as the “1987/1988 temperature regime shift” that occurs over Europe is questioning how winter pea will perform in the changing climate. This study assessed the winter frost damage evolution along from 1961 to 2015 in Burgundy-Franche-Comté by using: (1) daily observed and gridded regional temperature data and (2) a validated crop winter frost stress model calibrated for pea. This study shows a global decrease of the frost stress nevertheless resulting from a subtle balance between the decrease in its intensity and the increase of the number of events. The frost stress evolution patterns with warming depend on both plant frost resistance level and acclimation rate and are still sensitive to winter climate fluctuations. This study provides relevant information for breeding performant winter crop ideotypes able to moderate detrimental effects of climate change and offering new cropping opportunities in temperate regions

Frost stress evolution and winter pea ideotype in the context of climate warming at a regional scale

Pea (Pisum sativum L.) is an important crop in temperate regions for its high seed protein concentration that is particularly sensitive to abiotic stresses. The abrupt temperature increase known as the “1987/1988 temperature regime shift” that occurs over Europe is questioning how winter pea will perform in the changing climate. This study assessed the winter frost damage evolution along from 1961 to 2015 in Burgundy-Franche-Comté by using: (1) daily observed and gridded regional temperature data and (2) a validated crop winter frost stress model calibrated for pea. This study shows a global decrease of the frost stress nevertheless resulting from a subtle balance between the decrease in its intensity and the increase of the number of events. The frost stress evolution patterns with warming depend on both plant frost resistance level and acclimation rate and are still sensitive to winter climate fluctuations. This study provides relevant information for breeding performant winter crop ideotypes able to moderate detrimental effects of climate change and offering new cropping opportunities in temperate regions

Évolution rétrospective du risque gélif hivernal en climat tempéré suite eu réchauffement climatique.

10 pagesNational audienc

Cold acclimation in Medicago truncatula: first results of QTLs mapping towards candidate genes that control this phenomenon

International audienc

Cold acclimation in Medicago truncatula

International audienc

Integrated sRNA-seq and RNA-seq Analyses Reveal a microRNA Regulation Network Involved in Cold Response in Pisum sativum L.

International audience(1) Background: Cold stress affects growth and development in plants and is a major environmental factor that decreases productivity. Over the past two decades, the advent of next generation sequencing (NGS) technologies has opened new opportunities to understand the molecular bases of stress resistance by enabling the detection of weakly expressed transcripts and the identification of regulatory RNAs of gene expression, including microRNAs (miRNAs). (2) Methods: In this study, we performed time series sRNA and mRNA sequencing experiments on two pea (Pisum sativum L., Ps) lines, Champagne frost-tolerant and Térèse frost-sensitive, during a low temperature treatment versus a control condition. (3) Results: An integrative analysis led to the identification of 136 miRNAs and a regulation network composed of 39 miRNA/mRNA target pairs with discordant expression patterns. (4) Conclusions: Our findings indicate that the cold response in pea involves 11 miRNA families as well as their target genes related to antioxidative and multi-stress defense mechanisms and cell wall biosynthesis