Investigating water stress-related seasonal and spatial patterns and the possible links with juice and wine compositional parameters

Cis-acting regulatory elements are DNA sequences that can be bound by transcription factors to regulate the expression of genes in a condition-dependent and tissue-specific way. It is nowadays possible to search for DNA motives and sequences that a given transcription factor is binding or at least can, but it is still hard to have a glance at all the transcription factors that are contemporaneously located at the same locus. Inspired by an existing technique that uses the CRISPR-Cas system in mammal cells, we are trying to develop a protocol to study such regulation in Vitis vinifera. Using the highly sequence-specific binding capacity of a catalytically inactive Cas9 protein (dCas9), our idea is to set up a system to target a desired sequence and precipitate all the crosslinked proteins and distantly interacting chromatin at this locus and analyze them.

Vitis champinii cultivars Ramsey and Dog-ridge are main choices for rootstocks to adapt viticulture in semi-arid and arid regions thanks to their distinctive tolerance to drought and salinity. However, genetic studies on non-vinifera rootstocks have heavily relied on the grapevine (Vitis vinifera) reference genome, which difficulted the assessment of the genetic variation between rootstock species and grapevines. In the present study, this limitation is addressed by introducing a novo phased genome assembly and annotation of Vitis champinii. This new Vitis champinii genome was employed as reference for mapping RNA-seq reads from the same species under drought and salt stresses, and for comparison the same reads were also mapped to the Vitis vinifera PN40024.V4 reference genome. A significant increase in alignment rate was gained when mapping Vitis champinii RNA-seq reads to its own genome, compared to the Vitis vinifera PN40024.V4 reference genome, thus revealing the expression levels of genes specific to Vitis champinii. Moreover, differences in coding sequences were observed in ortholog genes between Vitis champinii and Vitis vinifera, which therefore challenges previous differential expression analyses performed between contrasting Vitis genotypes on the same gene from the Vitis vinifera genome. Genes with possible implications in drought and salt tolerance have been identified across the genome of Vitis champinii, and the same genomic data can potentially guide the discovery of candidate genes specific from Vitis champinii for other traits of interest, therefore becoming a valuable resource for rootstock breeding designs, specially towards increased drought and salinity due to climate change.

Grape harvest time is one of the most fundamental aspects that affect grape quality and thus wine quality. Many factors influence the decision of harvest; among them technological and phenolic maturity of grape. Technological ripeness is mainly related to sugar concentration, titratable acidity and pH. Conventional methods for chemical analysis of grapes are normally sample-destructive, time-consuming, include laborious sample preparation steps, and generate chemical waste, thereby limiting their utility in online/in-line quality monitoring. Moreover, destructive analyses can be performed only on a limited number of fruit pieces and, thus, their statistical relevance could be limited. This study evaluated the ability of a lab-scale hyperspectral imaging (HYP-IM) technique to predict titratable acidity, organic acid and sugar content of grapes. Samples of Cabernet franc and Chenin blanc grapes were consecutively collected six times at weekly intervals after veraison. The images were recorded thanks to the hyperspectral imaging camera Pica L (Resonon) in a spectral range from 400 to 1000 nm. Statistics were performed using Microsoft Xlstat software. Successively, the berries were analyzed for their sugar (glucose and fructose) and organic acid (malic and tartaric acid) content and titratable acidity according to usual methods.

A large genetic diversity exists among V. vinifera varieties, but also among cultivated rootstocks. This diversity is important to adapt plant material to different environmental conditions

Following the idea of « Grande Filiera » (GF) (Great chain), of « Grande Zonazione » (GZ) (Great Zonation), of “interpretation, estimation and valorisation of vineyards and wines landscape, of “qualities”(we have classified more than ninety), of quality economy.