Genomes store the instructions for how to build an organism. Often only individual genes are associated with certain functions. However, the genome not only defines single genes but also tells us about their arrangement on the DNA. Remarkably, many of these arrangements have been preserved from the genome of the common ancestor of sponges and humans, over 600 million years ago. Despite this, their potential function has long eluded scientists.



What gene arrangements reveal

In their current study, the team from the Department of Molecular Evolution and Development at the University of Vienna has now uncovered the first insights into this question. Using comparative genomic analyses, the researchers reconstructed evolutionarily conserved gene arrangements in animals and investigated their activity in different cell types. They could show that genes that are always present together in the genome in several species, also tend to be active in the same cells. For example, three genes that have been adjacent in several species (e.g., in sponges or cnidarians) for 600 million years are primarily active in a digestive cell type. "Cell types in animals can thus be characterized not only by individual genes but also by specific gene arrangements, and different cell types are also capable of accessing different regions in the genome," explains Oleg Simakov, evolutionary biologist at the University of Vienna. In addition, the team noted that certain cell types seem to utilize such conserved regions more than others, and thus may represent very ancestral functions.



The results show that not only gene loss or the emergence of new genes have played an important role in evolution, but also the changes in the arrangement of genes in the genome have made a significant contribution. "The study thus opens up a far-reaching perspective on investigating the functions of these regions in the respective cell types," concludes Simakov.



Publication in Nature Ecology & Evolution

Ancient animal genome architecture reflects cell type identities, Bob Zimmermann, Nicolas SM Robert, Ulrich Technau, Oleg Simakov, In: Nature Ecology & Evolution.

DOI: https://www.nature.com/articles/s41559-019-0946-7