terclim by ICS banner
IVES 9 IVES Conference Series 9 Activation of retrotransposition in grapevine

Activation of retrotransposition in grapevine

Abstract

Retrotransposons, particularly of the Ty-Copia and Ty-Gypsy superfamilies, represent the most abundant and widespread transposons in many plant genomes. Grapevine is no exception and it is clear that these mobile elements have played a major role in the evolution of Vitaceae genomes. While speculation abounds around the possible role of transposons in plant genomes, outside of the rather obvious involvement of retrotransposition in fueling genome expansion, there is little clarity of the actual role these elements have in both developing new genetic variation and in modulating epigenetic responses within genomes to changing climate. To this end we have been exploring de-novo assembled Sauvignon blanc and Pinot noir genomes with a view to catalogue retrotransposon loci to determine the structural intactness and thus age of insertion variation across a small number of clonal linages of these 2 varietals in an attempt to identify ‘live’ TE loci. Combining insights into insertional patterns with both short and long read transcriptome data has highlighted that only a small number of families and within these families and an even smaller number of discrete loci are responsible for ongoing retrotransposition. We are currently exploring means to alter the epigenomic landscape of grape genomes to allow heightened retrotransposon activity and thus mobilization. We will present how we are tracking this mobility using virus-like protein particle analysis (VLP-seq) to both identify families actively transposing and to study the genomic and epigenomic impact of this mobility prior to purifying selection.

DOI:

Publication date: June 14, 2024

Issue: Open GPB 2024

Type: Article

Authors

Christopher Winefield1*, Suguru Sugiyama1,2, Haniyeh Shahab1,2, Annabel Whibley2, Darrell Lizamore2

1 Department of Wine Food and Molecular Biosciences, Faculty of Agriculture and Life Sciences, Lincoln university, New Zealand
2 Bragato Research Institute, Lincoln University, New Zealand

Contact the author*

Keywords

Grapevine, Transposon, Genomics, Epigenomics, Climate Adaptation

Tags

IVES Conference Series | Open GPB | Open GPB 2024

Citation

Related articles…

Nematode vectors, grape fanleaf virus (GFLV) incidence and free virus vine plants obtaining in “Condado de Huelva” vineyards zone

The « Condado de Huelva » Registered Appellation Origin Mark (RAOM) is located in the Province of Huelva, in the southwest of Andalucía (Spain), being limited by the Atlantic Ocean and the Province of Sevilla. « Zalema », a white high productive grapevine plant is its major cultivar. The predominant rootstocks used are « Rupestris du Lot », « Castel 196-17 », « Couderc 161-49 », Couderc 33-09 », « Richter 110 » and « Millardet 41-B ». Traditionally, « Zalema » cv. has been dedicated to the elaboration of amber, bouquet-flavoured wines and in the last years mainly to young, fruit-flavoured white table wines.

The current state and prospects for the development of viticulture and winemaking in Greece

Viticulture in Greece is the oldest, but in recent years there has been a reduction of areas intended for the production of wine products. The article contains data on viticulture in Greece. Over time, the land of Greek vineyards is fluctuating. There is a trend towards a decrease in areas in connection with the quota of products from the EU.

Microbial ecosystems in wineries – molecular interactions between species and modelling of population dynamics

Microbial ecosystems are primary drivers of viticultural, oenological and other cellar-related processes
such as wastewater treatment. Metagenomic datasets have broadly mapped the vast microbial species
diversity of many of the relevant ecological niches within the broader wine environment, from vineyard
soils to plants and grapes to fermentation. The data highlight that species identities and diversity
significantly impact agronomic performance of vineyards as well as wine quality, but the complexity
of these systems and of microbial growth dynamics has defeated attempts to offer actionable
tools to guide or predict specific outcomes of ecosystem-based interventions.

«Nektar» -the new red variety wine grape aromatic high quality

The multi-annual study of the International Genetic Bank of the Grape Vine has shown that red varieties are enough, but the red varieties that produce high-quality red wine are minimal.

Impact of dried stems in winemaking on Veneto Passito wines

The use of stems during fermentation is generally avoided due to the herbaceous off-odors they can impart to the wine. [1].