terclim by ICS banner
IVES 9 IVES Conference Series 9 International Congress on Grapevine and Wine Sciences 9 2ICGWS-2023 9 INTEGRAPE guidelines and tools: an effort of COST Action CA17111

INTEGRAPE guidelines and tools: an effort of COST Action CA17111

Abstract

INTEGRAPE was a European interdisciplinary network for “data integration to maximize the power of omics for grapevine improvement” (CA17111, https://integrape.eu/), funded by the European COST Association from September 2018 to 2022. This Action successfully developed guidelines and tools for data management and promoted the best practices in grapevine omics studies with a holistic future vision of: “Imagine having all data on grapevine accessible in a single place”. This is the actual goal of its current spin-off GRAPEDIA (The Grape Genomics Encyclopedia; IG17111, https://grapedia.org/). By adhering to the F.A.I.R. (Findable, Accessible, Interoperable, and Reusable) principles, INTEGRAPE began its activities by focusing on data and metadata descriptions (i.e., for experiments), and has provided guidelines on plant phenotyping, including a standard vocabulary for grapevine ontology anatomy and developmental stages; it has delivered recommendations on transcriptomics and metabolomics data acquisition, data analysis, and data sharing into public repositories [1] and it has offered a new reference genome assembly[2], genome browser tools and up-to-date gene functional annotation[3]. Lastly, the network has been advanced in transcriptomics and metabolomics data integration by developing a user-friendly tool[4], available on the Vitis Visualization (VitViz) platform (https://tomsbiolab.com/vitviz).

Acknowledgments: We would like to acknowledge all the researchers from several countries who altogether dedicated time, effort, and knowledge to the success of this Cost Action.

References:

1)  Savoi et al. (2021) Grapevine and wine metabolomics-based guidelines for FAIR data and metadata management. Metabolites 11, 757, DOI 10.3390/metabo11110757

2)  Velt et al. (2023). An improved reference of the grapevine genome reasserts the origin of the PN40024 highly homozygous genotype. G3 Genes|Genomes|Genetics, DOI 10.1093/g3journal/jkad067

3)  Navarro-Payá et al. (2022) The grape gene reference catalogue as a standard resource for gene selection and genetic improvement. Frontiers in Plant Science 12:803977 DOI 10.3389/fpls.2021.803977

4)  Savoi et al. (2022) Transcriptomic and metabolomic integration as a resource in grapevine to study fruit metabolite quality traits. Frontiers in Plant Science 13:937927, DOI 10.3389/fpls.2022.937927

DOI:

Publication date: October 6, 2023

Issue: ICGWS 2023

Type: Poster

Authors

Stefania Savoi1*, Panagiotis Arapitsas2, Anne-Marie Digby3, Fulvio Mattivi2, José Tomas Matus4

1 Department of Agricultural, Forest and Food Sciences, University of Turin, Italy
2 Department of Food Quality and Nutrition, Edmund Mach Foundation, Research and Innovation Centre, San Michele all’Adige, Italy
3 Department of Biotechnology, University of Verona, Italy
4 Institute for Integrative Systems Biology (I2SysBio), Universitat de València-CSIC, Paterna, Spain

Contact the author*

Keywords

data accessibility, data standardization, data sharing, community, grapevine

Tags

2ICGWS | ICGWS | ICGWS 2023 | IVES Conference Series

Citation

Related articles…

Agronomic and oenological behavior of the minority Mandón variety on two rootstocks in the D.O. Arribes

A large population of vines of the Mandón minority red variety (synonymous with Garró) has been located in old vineyards of the D.O. Arribes (Zamora and Salamanca) to conserve and recover this minority variety. The wines made with this variety are characterized by their good structure and color, interesting harmony, an excellently low pH, with high acidity, as well as complex aromas of blue fruits and a marked and expressive minerality.

Phenolic composition profile of cv. Tempranillo wines obtained from severe shoot pruning vines under semiarid conditions

One of the limitations of vineyards in warm areas is the loss of wine quality due to higher temperatures during the grape ripening period. In order to adapt the vineyards to these new climatic conditions, a possible solution is to delay the ripening process of the grapes towards periods with milder temperatures, by means of management practices and thus improve the quality of the fruit and the wine produced. The technique of severe shoot pruning (SSP) has proven useful in achieving this objective.

A novel approach for the identification of new biomarkers of wine consumption in human urine using untargeted metabolomics

Wine is one of the most representative components of Mediterranean diet. Moderate wine intake together with food, has been positively correlated with reduced risk of many chronic diseases. This beneficial effect seems to be ascribed to elevated polyphenolic content of wine [1]. Traditional approaches for the identification of wine biomarkers consumption include targeted metabolomics that focuses on the quantification of well-defined metabolites, losing a valuable information about a massive number of compounds. On the other hand, untargeted metabolomics can disclose a large quantity of signals corresponding to potential biomarkers in a single analysis with high sensitivity and resolution.

Effect of foliar application of Ca, Si and their combination on grape volatile composition

Calcium (Ca) is an important nutrient for plants which plays key signaling and structural roles. It has been observed that exogenous Ca application favors the pectin accumulation and inhibition of polygalacturonase enzymes, minimizing fruit spoilage. Silicon (Si) is a non-essential element which has been found to be beneficial for improving crop yield and quality, as well as plant tolerance to diverse abiotic and biotic stress factors. The effect of Si supply to grapevine has been assessed in few investigations, which reported positive changes in grape quality and must composition.

Nitrogen forms and Iron deficiency: how do Grapevine rootstocks responses change?

Grapevine rootstocks provide protection against environmental biotic and abiotic stresses. Nitrogen (N) and iron (Fe) are growth-limiting factors in many crop plants due to their effects on the chlorophyll and photosynthetic characteristics. Iron nutrition of plants can be significantly affected by different nitrogen forms through altering the uptake ratio of cations and anions, and changing rhizosphere pH. The aim of this study was to investigate the response mechanisms of grapevine rootstocks due to the interaction between different nitrogen forms and iron uptake.