terclim by ICS banner
IVES 9 IVES Conference Series 9 International Congress on Grapevine and Wine Sciences 9 2ICGWS-2023 9 Accumulation of deleterious mutations in grapevine and its relationship with traits of interest for wine production and resilience

Accumulation of deleterious mutations in grapevine and its relationship with traits of interest for wine production and resilience

Abstract

Deleterious mutations that severely reduce population fitness are rapidly removed from the gene pool by purifying selection. However, evolutionary drivers such as genetic drift brought about by demographic bottlenecks may comprise its efficacy by allowing deleterious mutations to accumulate, thereby limiting the adaptive potential of populations. Moreover, positive selection can hitchhike mildly deleterious mutations due to linkage caused by lack of recombination. Similarly, in the context of species domestication, artificial selection mimics these evolutionary processes, which can have undesirable consequences for production and resilience. In this study, we evaluated the extent of the accumulation of deleterious mutations and the magnitude of their effects (also known as genetic load) at the whole-genome scale for ca. 500 grapevines including both wild Vitis species originated in three geographical regions (North America, Asia and Europe), and commercial varieties of V. vinifera ssp. sativa (using Illumina paired-end sequencing 20x from the 4k project[1]). We comparatively estimated the overall efficacy of selection as the ratio of non-synonymous to synonymous mutations in protein coding regions. We also performed various functional prediction analyses on the genomic sequence data to identify deleterious alleles and their effect on gene expression to quantify genetic load. In addition, 40 of the sequenced grapevine varieties were evaluated in an experimental common garden in Bordeaux (VitAdapt[2]). We obtained phenotypic traits related to wine productivity and resilience (e.g., phenology, biomass growth, water use efficiency and grape production) which allowed to analyse the correlation between the estimated genetic load and phenotypes. The results obtained from this work will contribute to the understanding of how we can best account for deleterious alleles and genetic load in new-generation grapevine breeding.

Acknowledgements: This study received financial support from the French government in the framework of the IdEX Bordeaux University “Investments for the Future” program / GPR Bordeaux Plant Sciences, and from the University of Bordeaux (PurVitis project).

1)  Dong, Y.,et al. (2023). Dual domestications and origin of traits in grapevine evolution. Science, 379(6635), 892901.

2)  Destrac Irvine A. and van Leeuwen C. (2016) The VitAdapt project: extensive phenotyping of a wide range of varieties in order to optimize the use of genetic diversity within the Vitis vinifera species as a tool for adaptation to a changing environment. Climwine, sustainable grape and wine production in the context of climate change, 11-13 April 2016, Bordeaux. Full text proceedings paper, 165-171.

DOI:

Publication date: October 6, 2023

Issue: ICGWS 2023

Type: Poster

Authors

Enrique Sáez-Laguna 1*, Gaëtan Craye 1Agnes Destrac Irvine 2, Cornelis van Leeuwen 2, Nabil Girollet 2, Pierre-François Bert 2, Nathalie Ollat 2, Santiago González-Martínez 1, Marina de Miguel 2

1 BIOGECO, Univ. Bordeaux, INRAE, 33610 Cestas, France
2 EGFV, Univ. Bordeaux, Bordeaux Sciences Agro, INRAE, ISVV, 33882 Villenave d’Ornon, France

Contact the author*

Keywords

deleterious mutations, genetic load, fitness, grape, variety, production

Tags

2ICGWS | ICGWS | ICGWS 2023 | IVES Conference Series

Citation

Related articles…

Differential gene expression and novel gene models in 110 Richter uncovered through RNA Sequencing of roots under stress

The appearance of the Phylloxera pest in the 19th century in Europe caused dramatical damages in grapevine diversity. To mitigate these losses, grapevine growers resorted to using crosses of different Vitis species, such as 110 Richter (110R) (V. berlandieri x V. rupestris), which has been invaluable for studying adaptations to stress responses in vineyards. Recently, a high quality chromosome scale assembly of 110R was released, but the available gene models were predicted without using as evidence transcriptional sequences obtained from roots, that are crucial organs in rootstock, and they may express certain genes exclusively. Therefore, we employed RNA sequencing reads of 110R roots under different stress conditions to predict new gene models in each haplotype of 110R under different stresses.

Impact of toasting and botanical origin on oak wood (Q. sp.) volatilome using untargeted GCxGC-ToFMS analysis

Many works have been carried out to identify the key aroma volatile compounds of oak wood (e.g., whisky-lactone, furfural, maltol, eugenol, guaiacol, vanillin) using conventional gas chromatography coupled with olfactometry and mass spectrometry (GC-O-MS). Inspired by recent untargeted approaches in the field of food “omics”, this work aims to extend our knowledge on the impact of cooperage process on the volatile composition of oak wood using two-dimensional comprehensive gas chromatography coupled with time of flight mass spectrometry (GCxGC-ToFMS).

Influence of p-Coumaric Acid and Micronutrients on Growth and 4-Ethylphenol Production by Brettanomyces bruxellensis

The wine spoilage caused by Brettanomyces bruxellensis is one of the global concerns for winemakers. Detecting the presence of B. bruxellensis using routine laboratory culture techniques becomes challenging when cells enter the viable but not culturable (VBNC) state. This study aims to investigate the impact of p-coumaric acid (a volatile phenol precursor) and micronutrients on B. bruxellensis’ culturability, viability, and volatile phenol production under sulfite stress. In red wine, exposure to a high sulfite dose (100.00 mg L-1 potassium metabisulfite) resulted in immediate cell death, followed by a recovery of culturability after two weeks.

Grapevine adaptation to drought and resistance to Neofusicoccum parvum, causal agent of Botryosphaeria dieback

The sustainability of viticulture in response to climate change has been addressed mainly considering agronomic impacts, such as water management and diseases, either separately or together.
In grapevines, there is strong evidence that different genotypes respond differently to biotic and abiotic stresses. A screening was conducted on various local cultivars in response to drought and Neofusicoum parvum infection aiming to evaluate their susceptibility to abiotic stress and resistance to fungal diseases.

Energy partitioning and functionality of photosystem II in water-stressed grapevines during heatwaves revealed by continuous measurements of chlorophyll fluorescence

The increased intensity and frequency of heatwaves, coupled with prolonged periods of drought, are a significant threat to viticulture worldwide. During these conditions the more exposed leaves can show visible symptoms of heat damage. We monitored the functionality of photosystem II (PSII) in the field to better understand the impact of heatwaves on canopy performance. A factorial experiment was established in summer 2023 using Shiraz grapevines in the Barossa valley of South Australia, involving water-stressed and well-watered vines.