Polyploidization is one of the major driving forces of plant evolution and crop domestication and plays a key role in plant environmental adaptation. The function of multiple gene copies (homoeologous genes) from different subgenomes can vary from each other (sub/neofunctionalization), which is considered as the key to understanding polyploidy evolution and environmental adaptation. However, most sequence variations between homoeologous genes lie on the non-coding region or are synonymous mutations, which cannot lead to codon change. To data, very little is known about how the vast majority of sequence variations over the gene body regions drives subgenomes sub/neofunctionalization in polyploidy. Recently, Single Nucleotide Polymorphism (SNP) induced RNA structural alteration is demonstrated to play key roles in post-transcriptional regulations such as RNA decay and splicing. Further studies in human disease showed that SNP-induced RNA structural changes are associated with diverse human disease and phenotypes. And also, temperature can affect the RNA structures that more stably folded mRNAs tended to show lower decay rate. This brought attention to the existing function of synonymous mutations as well as non-coding SNPs. Thus, I hypothesize that SNP-induced RNA structural alteration might lead to the subgenomes sub/neofunctionalization and play an important role in temperature stress response. As tetraploid wheat is widely grown in the Europe and its yield is severely affected by heat stress, I will test my hypothesis in tetraploid wheat. Firstly, genome-wide RNA secondary structure profiling will be applied to compare SNP-induced RNA structure variations between subgenomes in tetraploid wheat. Secondly, I will investigate the roles of SNP-induced RNA structure variations in RNA stability and splicing pattern changes between subgenomes. Finally, I will assess the role of SNP-induced RNA structure variations in response to high temperature.

The formation of the chemical contaminant, acrylamide, during high-temperature cooking and processing of wheat, rye, potato and other mainly plant-derived raw materials was reported in 2002, and the presence of acrylamide in foods is now recognized as a difficult problem for the agricultural and food industries. Acrylamide causes cancer in laboratory animals and is therefore considered to be probably cancer-causing in humans. It also affects the nervous system and reproduction. Cereals, of which wheat is the most important, generate half of the acrylamide in the European diet, with biscuits, snacks and breakfast cereals being of particular concern. This application is being funded through the BBSRC’s stand-alone LINK scheme. The project will use state-of-the-art techniques for analysing amino acid concentrations in wheat flour, exploit the genetic resources in wheat that have been developed at Rothamsted and the John Innes Centre, including mapping populations, wheat genetic modification (as a research tool) and high-throughput screening of mutant populations, and utilise the latest DNA sequencing techniques to study differences in gene expression between high and low asparagine genotypes. The impact of reductions in acrylamide-forming potential of grain on performance in industrial processes will be assessed by food industry partners.