terclim by ICS banner
IVES 9 IVES Conference Series 9 Reduced bunch compactness in a clone of Tempranillo associates with a complex reciprocal translocation detected by long-read sequencing genomics

Reduced bunch compactness in a clone of Tempranillo associates with a complex reciprocal translocation detected by long-read sequencing genomics

Abstract

Grapevine cultivars are vegetatively propagated to maintain their varietal attributes. However, spontaneous somatic variation emerges during prolonged periods of vegetative growth, providing an opportunity for the natural improvement of traditional grapevine cultivars. Notably, reduction in bunch compactness is a favorable trait in viticulture, offering advantages such as decreased susceptibility to bunch fungal diseases, and a more uniform ripening of berries. To unravel the genetic and developmental mechanisms behind bunch compactness variation, we examined a somatic variant of Tempranillo Tinto cultivar with loose bunches. We found that the mutant clone exhibits a ~50% reduction in pollen viability compared to typical Tempranillo clones. By aligning Illumina and Nanopore whole-genome sequencing reads to a diploid genome assembly of Tempranillo, we identified genome structural variations (SV) specific of this clone: translocation events involving chromosomes 1-3, 7-11, and 8-17. The presence of the SV breakpoints was validated using PCR and Sanger sequencing. The analysis of self-cross progeny of the mutant clone showed that low pollen viability and reduced number of seeds per berry co-segregate with the SV event between specific haplotypes of chromosomes 1 and 3, suggesting a causal effect for this rearrangement. Inspection of Nanopore read alignments identified that the SV 1-3 event corresponds to a complex reciprocal translocation with duplications at the breakpoints of the two involved chromosomes. Considering that heterozygous reciprocal translocations associate with partially incompatible chromosome pairing during meiosis, we propose that this type of SV decreases fruit set rate by lowering gamete viability, ultimately reducing bunch compactness.

DOI:

Publication date: June 14, 2024

Issue: Open GPB 2024

Type: Article

Authors

Pablo Carbonell-Bejerano1*, Noelia Alañón1, Yolanda Ferradás1,2, Nuria Mauri1,3, José Miguel Martínez-Zapater1, Javier Ibáñez1*

1 Instituto de Ciencias de la Vid y del Vino (ICVV, CSIC-CAR-UR), Departamento de Viticultura, Logroño, Spain
2 Departamento de Biología Funcional, Universidad de Santiago de Compostela, Santiago de Compostela, Spain
3 Centre for Research in Agricultural Genomics (CSIC-IRTA-UAB-UB), Cerdanyola del Vallès, Barcelona, Spain

Contact the author*

Keywords

bunch compactness, clonal variation, genome structural variation, pollen viability, reciprocal translocation

Tags

IVES Conference Series | Open GPB | Open GPB 2024

Citation

Related articles…

Understanding the complexity of grapevine winter physiology in the face of changing climate

The vast majority of our understanding of grapevine physiology is focused on the processes that occur during the growing season. Though not obvious, winter physiological changes are dynamic and complex, and have great influence on the survival and phenology of grapevines. In cool and cold climates, winter temperatures are a constant threat to vine survival. Additionally, as climate changes, grapevine production is moving toward more traditionally cool and cold climates, either latitudinal or altitudinal in location. Our research focuses on understanding how grapevines navigate winter physiological changes and how temperature impacts aspects of cold hardiness and dormancy. Through these studies, we have gained keen insight into the connections between winter temperature, maximum cold haridness, and budbreak phenology, that can be used to develop prediction models for viticulture in a changing climate.

Studying heat waves effects on berry composition: first outlooks and challenges

Extreme climatic events, such as prolonged drought followed by intense flooding, increasingly impact viticulture, affecting vine physiology, productivity, and grape composition.

Characterization of “territoires” throughout the production of wines obtained with withered grapes: the cases of “Terra della Valpolicella” (Verona) and “Terra della Valle del Piave” (Treviso) in Northern Italy

Dans la définition et la description d’un “territoire” (“terra” en italien), avec les facteurs du milieu et génétiques, un rôle important est joué par ceux agronomiques, techniques et de culture qui contribuent à caractériser le produit d’une zone spécifique.

Unprecedented rainfall in northern Portugal

Aim: Climate is arguably one of the most important factors determining the quality of wine from any given grapevine variety. High rainfall during spring can promote growth of the vines but increases the risk of fungal disease, while vineyard operations can be disrupted, as machinery may be prevented from getting in the vineyard owing to muddy soils.

Un jour, l’AOD (Appellation d’Origine viticole Durable), fusion de l’origine et de la durabilité

The evolution of wine quality issues is historically expressed by the passage from wine quality (what is a wine?) to wine quality (what is a good wine?). Perhaps the next question could be: what is a good sustainable wine? To contribute to reflection on this theme, it may be worthwhile to undertake an exercise in prospective fiction, which we have identified in the hypothesis of the AOD, the “appellation d’origine durable”, a scenario we will develop in the light of developments in the wine industry and the regulation on geographical indications.