Biotech Updates

New Strategy in Identifying SNP in Cotton Genome

April 8, 2015

The use of single nucleotide polymorphism (SNP) as a marker is very useful in studying genetic variations in plants and other studies. However, difficulty in identifying and observing SNP was observed when studying plant with complex genome such as cotton. In a study conducted by researchers from Texas A&M University and USDA-Agricultural Research Service a new strategy was developed to ease the identification of SNP in Gossypium spp. (cotton) Malvaceae genome.

By employing the Illumina next-generation sequencing platform, a total of 54 million reads were collected from restriction-enzyme-digested DNA from the four cotton species. These were then filtered by a bioinformatic software, Stack, producing over 20,000 new cotton SNP combinations. This strategy will be helpful in plant genetic mapping, linkage and genetic diversity studies and can also be applied to other plant species having complex genomes.

The study can be read and access at BioOne's website.