terclim by ICS banner
IVES 9 IVES Conference Series 9 VitExpress, an open interactive transcriptomic platform for grapevine

VitExpress, an open interactive transcriptomic platform for grapevine

Abstract

We developed VitExpress, an open interactive transcriptomic platform for grapevine, using our newly assembled and annotated Chasselas genome as a reference. This platform provides a genome browser and integrated web tools for expression profiling, and a set of statistical tools (StatTools) for the identification of highly correlated genes. The implementation of the correlation finder tool for MybA1, a major regulator of the anthocyanin pathway, identified candidate genes associated with anthocyanin metabolism, whose expression patterns were experimentally validated as discriminating between black and white grapes. These resources and innovative tools for mining genome-related data are anticipated to foster advances in several areas of grapevine research.

DOI:

Publication date: July 6, 2024

Issue: Open GPB 2024

Type: Poster

Authors

Guillaume Madignier1,2, Anis Djari1, Olivia Di Valentin1, Thibault Gillet1, Pierre Frasse1, Amel Djouhri1, Guojian Hu1,2, Sebastien Julliard3, Mingchun Liu4, Yang Zhang4, Farid Regad1, Julien Pirrello1, Elie Maza1,*, and Mondher Bouzayen1,*

1Laboratoire de Recherche en Sciences Végétales–Génomique et Biotechnologie des Fruits-UMR5546, Université de Toulouse, CNRS, Université Paul Sabatier, Institut Polytechnique de Toulouse, Auzeville Tolosan 31326, France
2Fondation Jean Poupelain, Cognac, Javrezac 16100, France
3Conservatoire du vignoble charentais, Institut de Formation de Richemont, Cherves-Richemont 16370, France
4Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, China

Contact the author*

Keywords

Transcriptomic platform, RNA-seq, Statistics, Data mining, Anthocyanin pathway

Tags

IVES Conference Series | Open GPB | Open GPB 2024

Citation

Related articles…

Influence of soil characteristics on vine growth, plant nutrient levels and juice properties: a multi-year analysis

Soil physical and chemical properties affect vine nutrition, as indicated by leaf and petiole nutrient content, in a way that may directly impact wine properties.

Biological control of the vineyard: new microbiological findings from CREA-VE

According to the Food and Agriculture Organisation (FAO), 75.866 km2 of the world is dedicated to grape cultivation. About 71.0% of the world’s grape production is destined for winemaking, 27.0% for consumption as fresh fruit and 2.0% as raisin. Grape production is mainly hindered by fungal infections, that can develop both in field and post-harvest.

Caratterizzazione varietale della CV. Vranac del Montenegro: primi risultati

Questo studio ha permesso di raccogliere alcune informazioni sul profilo chimico della cultivar Vranac coltivata in Montenegro. L’uva ha mostrato di raggiungere un buon accumulo zuccherino

Geochemistry of Vrbničko Polje (Croatia) winegrowing site

A multi-element pedo-geochemical survey was carried out in Vrbničko polje vineyards on the Krk Island, Croatia. This Mediterranean winegrowing site is famous by Žlahtina wine production.

From genes to vineyards: system biology and new breeding technologies for water stress tolerance in grapevines

One of the major challenges for food security and sovereignty is to produce stress-tolerant plants without introducing foreign DNA, because the legislative process, that bans transgenics, challenges us to find new solutions for producing plants that can survive the drought. To achieve this goal, we need to identify genes that can be modified to improve stress tolerance in plants. In this work, we present an online tool for exploring the transcriptome of grapevines under water stress, which is one of the most important abiotic stresses affecting viticulture. The tool is based on a comprehensive collection of rna-seq data from 997 experiments, covering four different tissues (leaf, root, berry, and shoot), various levels of water stress, and diverse genetic backgrounds (cultivars and rootstocks) with different levels of tolerance to water stress.