2026-07-22T09:50:24Zhttps://repisalud.isciii.es/rest/oai/requestoai:repisalud.isciii.es:20.500.12105/54022024-09-27T08:44:50Zcom_20.500.12105_19604com_20.500.12105_2051col_20.500.12105_19605
Repisalud
author
Pulvirenti, Alfredo
author
Giugno, Rosalba
author
Distefano, Rosario
author
Pigola, Giuseppe
author
Mongiovi, Misael
author
Giudice, Girolamo
author
Vendramin, Vera
author
Lombardo, Alessandro
author
Cattonaro, Federica
author
Ferro, Alfredo
funder
Unión Europea. Fondo Europeo de Desarrollo Regional (FEDER/ERDF)
2017-11-27T13:49:51Z
2017-11-27T13:49:51Z
2015
BMC Syst Biol. 2015; 9 Suppl 3:S5
10.1186/1752-0509-9-S3-S5
1752-0509
BMC Systems Biology
26050794
http://hdl.handle.net/20.500.12105/5402
Background: Vitis vinifera (Grapevine) is the most important fruit
species in the modern world. Wine and table grapes sales contribute
significantly to the economy of major wine producing countries. The most
relevant goals in wine production concern quality and safety. In order
to significantly improve the achievement of these objectives and to gain
biological knowledge about cultivars, a genomic approach is the most
reliable strategy. The recent grapevine genome sequencing offers the
opportunity to study the potential roles of genes and microRNAs in fruit
maturation and other physiological and pathological processes. Although
several systems allowing the analysis of plant genomes have been
reported, none of them has been designed specifically for the functional
analysis of grapevine genomes of cultivars under environmental stress in
connection with microRNA data.
Description: Here we introduce a novel knowledge base, called BIOWINE,
designed for the functional analysis of Vitis vinifera genomes of
cultivars present in Sicily. The system allows the analysis of RNA-seq
experiments of two different cultivars, namely Nero d'Avola and Nerello
Mascalese. Samples were taken under different climatic conditions of
phenological phases, diseases, and geographic locations. The BIOWINE web
interface is equipped with data analysis modules for grapevine genomes.
In particular users may analyze the current genome assembly together
with the RNA-seq data through a customized version of GBrowse. The web
interface allows users to perform gene set enrichment by exploiting
third-party databases.
Conclusions: BIOWINE is a knowledge base implementing a set of
bioinformatics tools for the analysis of grapevine genomes. The system
aims to increase our understanding of the grapevine varieties and
species of Sicilian products focusing on adaptability to different
climatic conditions, phenological phases, diseases, and geographic
locations.
eng
EXPRESSION ANALYSIS
METABOLITE ANALYSIS
GRAPEVINE GENOME
GENE-EXPRESSION
BAC LIBRARY
SEQUENCE
IDENTIFICATION
TRANSCRIPTOME
STRESS
BERRY
A knowledge base for Vitis vinifera functional analysis
journal article
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