Transposon element annotation in the hordeum species

We are excited to share the progress of our recent research project, which involved an extensive analysis of genomes from 25 species within the Hordeum genus. Our primary objective was to delve into the genetic variations and commonalities among these genomes, and this undertaking came with its own set of computational challenges, given that the majority of these genomes exceeded 3.5GB in size. In this regard, we would like to express our deep appreciation for the invaluable support provided by the de.NBI Cloud platform.

The de.NBI Cloud platform emerged as an indispensable tool in the successful execution of our research endeavor. It not only offered an efficient and robust computing environment but also provided us with the substantial computational resources necessary to tackle the complexities presented by these extensive datasets. One of the significant accomplishments made possible by the de.NBI Cloud platform was the annotation of transposon elements within the Hordeum genus through the use of the EDTA pipeline. This annotation pipeline was primarily employed to annotate transposons in 23 genomes, which encompassed a diverse range, including 3 allotetraploids and 20 diploids, all belonging to the same genus. These genomes exhibited notable variations in size, exceeding 1GB in some genomes. The annotated transposons have proven to be invaluable resources, shedding light on the intricate mechanisms that govern genome size fluctuations.

We cannot overstate the pivotal role played by the de.NBI Cloud platform in the success of our project. Its unwavering support, advanced computational capabilities, and user-friendly interface have been essential assets throughout our research journey. We extend our heartfelt gratitude to the de.NBI Cloud platform for being an indispensable partner in our scientific endeavors.

Jia-Wu Feng and Martin Mascher
Jia-Wu Feng and Martin Mascher from Domestication Genomics, The Leibniz Institute of Plant Genetics and Crop Plant Research (IPK)