Gene-based molecular markers to improve genetic gains in challenging environments
Project name
Exome-based new allele-specific PCR markers and transferability for sodicity tolerance in bread wheat (Triticum aestivum L.)
What is the project about?
Bread wheat is an allohexaploid with 3 sub genomes (A, B, and D) having 80 per cent repetitive DNA, making it challenging to study specific genes.
However, recent advances in genomics and sequencing technology are helping researchers to understand these genes better by targeting gene-rich regions of genome.
In a previous association analysis (read more about it here) a gene-based sequencing platform was used to identify new SNPs and haplotypes contributing to improved wheat productivity on sodic soils.
These SNPs are associated with genes and transcription factors, majorly involved in alleviating abiotic stress tolerance.
The location of these new SNPs was identified by aligning approximately 180 bp gene-based sequences from the sequencing platform onto the respective chromosome sequence of the International Wheat Reference Genome Sequence (also known as IWGSC1.0).
New molecular markers were designed around the identified SNP location.
The study provided 8 high throughput molecular markers associated with yield, plants (metres squared), heads (metres squared), and harvest index, including a pleiotropic (common) marker for yield, harvest index, and the grains per head.
Researchers confirmed the validity of these markers in a diverse germplasm and biparental population.
This integrated approach of discovering new SNPs, haplotypes and high-throughput molecular markers using gene-based sequencing offers translation solutions in crop improvement programs to improve complex traits and crop productivity.
Dr Roopali Bhoite said the application of functional gene-based molecular markers in breeding programs could rapidly improve genetic gains that support grower profitability and farm sustainability.
Contact
Dr Roopali Bhoite
DPIRD Research Scientist
E: Roopali.Bhoite@dpird.wa.gov.au