Raw data: multispecies amplicon sequencing (Loera, Studer, and Kölliker, 2021, Molecular Ecology Resources)

<p>Grasslands cover close to two fifths of Earth's land. They provide many ecosystem services related to the maintenance of soil integrity, and the regulation of water, carbon and nitrogen flows. Grasslands constitute the basis for sustainable roughage production for ruminant feeding. In Switzerland, grasslands cover more than 70% of the total agricultural land, which highlights their importance in the domestic food production chains.</p> <p>Plant genetic diversity (PGD), a component of biodiversity, influences ecosystem functioning in grasslands. High levels of grassland PGD are related to resistance against invasive plants and yield stabilization during environmental stress (e.g., drought or frost). The PGD of grasses and legumes —the two most economically relevant plant families found in grasslands, which naturally grow in a wide climate spectrum— harbors valuable genetic resources for forage breeding. Nevertheless, most PGD studies of natural or semi-natural grasslands (i.e., grasslands that are not sown) focus on a single or a few related species. Traditional PGD monitoring methods (e.g., simple sequence repeats, or SSRs) are ill-suited for large-scale, multispecies assessments.  This limits our ability to study the ecological effects of grassland PGD, its spatiotemporal patterns, and its significance for grassland management.</p> <p>Looking to provide cost-effective tools for multispecies PGD monitoring in grasslands, we performed a sequence capture assay targeting 611 single-copy nuclear loci, followed by multispecies amplicon sequencing (i.e., amplicon sequencing using primer pairs that can be used in multiple species) on eleven selected loci.</p> <p>Our results indicate that multispecies amplicon sequencing is a cost-effective tool for genetic diversity assessment in grassland plant species. Furthermore, the sequence capture data provides the means to extend the number of multispecies amplicons for further research.</p>