Coupling ecological network analysis with high-throughput sequencing-based surveys: Lessons from the next-generation biomonitoring project

Biomonitoring ecosystems is necessary in order to evaluate risks and efficiently manage their associated services. Agrosystems are the target of multiple stressors that can affect many species through effects cascading along food webs. However, classic biomonitoring, focused on diversity or indicator species, might be a poor predictor risk such whole-ecosystem perturbations. Thanks high-throughput sequencing methods, however, it possible obtain sufficient information about entire ecological communities infer functioning interaction networks, thus monitor more closely collapse webs due external stressors. In course ‘next-generation biomonitoring’ project, we collectively sought experiment with this idea inferring networks basis metabarcoding gathered different systems. We here give an overview issues preliminary results endeavour highlight main difficulties next-generation biomonitoring still facing. Going from sampling protocols up methods for comparing inferred biomolecular, bioinformatic, network inference, review all steps process, view towards generality transferability other