GiESCO 2019 banner
IVES 9 IVES Conference Series 9 GiESCO 9 GiESCO 2019 9 Towards the definition of a detailed transcriptomic map of grape berry development

Towards the definition of a detailed transcriptomic map of grape berry development

Abstract

Context and purpose of the study ‐ In the last years the application of genomic tools to the analysis of gene expression during grape berry development generated a huge amount of transcriptomic data from different varieties and growing conditions. This information set the stage to understand the molecular basis of crucial developmental and metabolic rearrangements occurring during grape berry formation and ripening. It is now clear that the variation of a portion of berry transcriptome is conserved across cultivars and growing conditions, and thus may be used universally to describe the stage of berry development. In this work we explore the possibility of using the transcriptomic data generated from two cultivars to define a very detailed developmental map of the grape berry.

Material and methods ‐ To map the molecular events associated with berry development at very high temporal resolution, we performed RNA‐seq analysis of berry samples collected every week from fruit‐ set to maturity from Pinot noir and Cabernet Sauvignon vines grown in the same location. The experiment was replicated across three consecutive years (2012, 2013, 2014) resulting in 219 samples overall. Applying multivariate analyses to the most variable portion of the transcriptome, we built a transcriptomic model of berry development based on the molecular information obtained from samples of both cultivars.

Results ‐ The Pinot noir and Cabernet Sauvignon samples mostly aligned in a 3D transcriptomic map (~80% of the variance described by Principal Component Analysis), allowing to define a general model of berry development based on gene expression. The performance of the model in describing the development of other grape varieties was accessed projecting RNA‐seq samples of fruit development of ten Italian cultivars onto the model. Both red and white‐skin berry samples mapped on the transcriptomic map and revealed alignment by standard ripening parameters (e.g. total soluble solids) as well as unrelated to any of these. Moreover, we validated that berry maturation of the same cultivar cultivated in different International growing regions can be well represented and aligned by means of our transcriptomic map. These results showed that the transcriptomic information can be accessed to precisely define a model of “molecular phenology” that can be used to map the ontogenetic development of the fruit with high precision and to align the stage of berry development of different grapes. 

DOI:

Publication date: June 19, 2020

Issue: GiESCO 2019

Type: Article

Authors

Marianna FASOLI (1), Chandra L. RICHTER (1), Sara ZENONI (2), Marco SANDRI (2), Paola ZUCCOLOTTO (3), Mario PEZZOTTI (2), Nick DOKOOZLIAN (1), and Giovanni Battista TORNIELLI(2)

(1) E&J Gallo Winery, Modesto, CA 95353, USA
(2) Department of Biotechnology, University of Verona, 37134 Verona, Italy
(3) Big & Open Data Innovation Laboratory, University of Brescia, 25123 Brescia, Italy

Contact the author

Keywords

Grapevine, Berry development, Ripening, Molecular Phenology, Transcriptomics

Tags

GiESCO 2019 | IVES Conference Series

Citation

Related articles…

Soil clay mineralogy and potassium buffer capacity as potential wine quality determining factors in Western Cape vineyards

The potassium (K) supply characteristics and clay mineralogies of a population of Western Cape soils were investigated to determine their potential effects on vine K uptake and wine quality. The total K contents of granite-, shale- and sandstone-derived soils varied, averaging 33.7, 26.1 and 4.5 cmol(+)/kg, respectively. Corresponding M NH4Cl exchangeable soil K levels were: 0.172, 0.042 and 0.035 cmol/kg.

Extraction of pathogenesis-related proteins and phenolics in Sauvignon Blanc as affected by different

The composition of wine is largely determined by the composition of pre-fermentation juice, which is influenced by extraction of grape components. Different grape harvesting and processing conditions could affect the extraction of grape components into juice. Among these grape components, pathogenesis-related (PR) proteins are of great concern for white wine maker as they are the main cause of haze formation in finished white wine. If not removed before bottling, these PR proteins may progress into haze through the formation of complex with phenolics under certain conditions. Thaumatin-like proteins (TLPs) and chitinases are the main constituents of PR proteins found in protein haze.

Genomic characterization of extant genetic diversity in grapevine

Dating back to the early domestication period of grapevine (Vitis vinifera L.), expansion of human activity led to the creation of thousands of modern day genotypes that serve multiple purposes such as table and wine consumption. They also encompass a strong phenotypic diversity. Presently, viticulture faces various challenges, which include threatening climatic change scenarios and an historical track record of genetic erosion. Paritularly with regards to wine varieties, there is a pressing need to characterize the extant genetic diversity of modern varieties, as a means to delvier knowledge-based solutions under a rapidly evolving scenario, that may enable improved yields and profiles, resistance to pathogens, and increased resilience to climate change.

Integrative grape to wine metabolite analyses to study the vineyard “memory” of wine

Wine production is a complex multi-step process and the end-product is not easily defined in terms of composition and quality due to the diversity of the raw materials (grapes) and the biological agents (yeast and bacteria) used/present during the fermentation. Furthermore, linking what happens in the vineyard to the wine fermentation and ultimately to characteristics in the wine during ageing

Decoupling the effects of water and heat stress on Sauvignon blanc berries

Climate changes have important consequences in viticulture, heat waves accompanied by periods of drought are encountered more and more frequently. This study aims to evaluate the single and combined effect of water deficit and high temperatures on the thiol precursors biosynthesis in Sauvignon blanc grapes. For this purpose, a protocol has been developed for the cultivation of berries on a solid substrate. The berries, collected at three different times starting from veraison and grown in vitro, were subjected to 4 different treatments: control (C), water stress (WS), heat stress (HS), combined water and heat stress (WSHS). Water stress was simulated by adding abscisic acid to the culture medium, while different temperatures, respectively 25°C and 35°C, were managed with two illuminated climatic chambers.