Next generation sequencing techniques to study differential gene expression are an important tool for understanding biological processes. In complex non-model organisms, such as hexaploid bread wheat, these methods can be used to elucidate key biological pathways controlling agriculturally important traits. Transcriptomics of field grown material requires high levels of replication, so for these large-scale projects full length mRNA-seq is still cost prohibitive. Moreover, for polyploid genomes deeper levels of sequencing are required to identify differential regulation of homoeologous gene copies.3’RNA-seq is a technique that can reduce sequencing costs and also potentially simplify the downstream bioinformatics, by producing single library fragments per mRNA. Here, we demonstrate its use in bread wheat transcriptomics. An initial trial found that the Lexogen QuantSeq® FWD kit was the best performing commercially available kit. Preliminary and in silico data showed that longer read lengths were required in bread wheat to differentiate between homoeologues. The standard Lexogen protocol was adapted to increase the library fragment size to allow for the use of longer sequencing reads. We intend to validate the adapted protocol against standard non-directional mRNA-seq libraries and determine sequencing depth requirements, demonstrating that 3’RNA-seq could be used to identify differential gene expression at a reduced cost to standard mRNA-seq and still differentiate between homoeologous genes.