Using nanopore skim-sequencing to characterise regional epigenetic variability in New Zealand Sauvignon Blanc

Enzymatic browning of grape must remains a major issue in winemaking, especially when grapes are affected by grey rot.

Vineyard water availability is one of the most important variables both in plant’s production and wine quality, once it regulates several processes, among which the stomata activity. To avoid water deficit, wine producers introduced artificial irrigation in their vineyard, using a semi-empirical process to calculate water amount.

Vineyard yield forecasting is a key issue for vintage scheduling and optimization of winemaking operations. High errors in yield forecasting can be found in the wine industry, mainly due to the high spatial variability in vineyards, strong dependency on historical yield data, insufficient use of agroclimatic data and inadequate sampling methods

Infection of the grapes with Botrytis cinerea has a tremendous impact on the resulting crop yield and quality. Well-known problems that are associated with B. cinerea are specific off-flavors, poor filterability, and brownish color in white wines. The development of a B. cinerea infection strongly depends on weather conditions and is highly variable through different vintages. Typical control measures include defoliation and the use of fungicides, which involves high personnel and material costs. They also involve a great risk, especially since the effectiveness and time point of these treatments are difficult to predict.

Fermenting grape juice represents one of the oldest continuously maintained anthropogenic microbial environments and supports a well-mapped microbial ecosystem. Several yeast and bacterial species dominate this ecosystem, and some of these species are part of the globally most studied and best understood individual organisms. Detailed physiological, cellular and molecular data have been generated on these individual species and have helped elucidate complex evolutionary processes such as the domestication of wine yeast strains of the species Saccharomyces cerevisiae. These data support the notion that the wine making environment represents an ecological niche of significant evolutionary relevance. Taken together, the data suggest that the wine fermentation ecosystem is an excellent model to study fundamental questions about the working of microbial ecosystems and on the impact of biotic selection pressures on microbial ecosystem functioning. Indeed, and although well mapped, the rules and molecular mechanisms that govern the interactions between microbial species within this, and other, ecosystems remain underexplored. Here we present data derived from several converging approaches, including microbiome data of spontaneous fermentations, the population dynamics of constructed consortia, the application of biotic selection pressures in directed laboratory evolution, and the physiological and molecular analysis of pairwise and higher order interactions between yeast species. The data reveal the importance of cell wall-related elements in interspecies interactions and in evolutionary adaptation and suggest that predictive modelling and biotechnological control of the wine ecosystem during fermentation are promising strategies for wine making in future.