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…

EVALUATION OF A SEAWEED EXTRACT OF RUGULOPTERYX OKAMURAE AGAINST ERYSIPHE NECATOR IN GRAPEVINE

Powdery mildew, caused by Erysiphe necator, is a widespread disease that causes high economical losses in viticulture. The main strategy to control the disease is the recurrent application of sulphur based phytochemical compounds. However, in order to reduce their accumulation in the environment and promote the sustainability of the sector, the European Commission has applied restrictions to the number of pesticide treatments and the maximum quantity of fungicides to be applied in viticulture. Seaweeds, in particular macroalgae, are marine resources rich in sulphated polysaccharides with bio-protective potential for the plant, representing an environmentally-friendly alternative approach for sustainable wine production.

The use of fluorescence spectroscopy to develop a variability index and measure grape heterogeneity

AIM This work aims to investigate fluorescence spectroscopy as a tool to assess grape homogenates to discriminate between samples of varying maturities and to develop an index to objectively characterise the level of grape heterogeneity present in any given vineyard.

Effects of the biodynamic preparations 500 and 501 on vine and berry physiology, pedology and the soil microbiome

In the pursuit of increasing sustainability, climate change resiliency and independence of synthetic pesticides in agriculture, the interest of consumers and producers in organic and biodynamic farming is steadily increasing. This is in particular the case for the vitivinicultural industry in Europe, where more and more producers are converting from organic to biodynamic farming. However, clear scientific evidence showing that biodynamic farming improves vine physiology, vine stress resilience, berry or wine quality, or is more sustainable for the environment is still lacking although this issue has been addressed by several research teams worldwide.

Un exemple de valorisation d’une étude de terroir au sein d’une unité coopérative de production à Saint Hilaire d’Ozilhan (Gard) dans les cotes du Rhône

The winegrowers of the intercommunal cooperative cellar of Saint Hilaire d’Ozilhan have been practicing terroir selection for ten years. Five years ago, after having equipped themselves with an efficient commercial structure, and anxious to improve knowledge of their terroirs and to better control quantitatively and qualitatively the range of typicality that they can develop, they asked the Syndicate Général des Vignerons Réunis des Côtes du Rhône and the Institut Coopératif du Vin to help them set up an approach to better judge the behavior of the Grenache and Syrah grape varieties in the different terroirs, then to enhance this work through the improving product quality.

A new graphical interface as a tool to integrate data from GC-MS and UPLC-MS-QTOF: new compounds related with port wine aging

Port wine value is related to its molecular profile resulting from the changes occurring during the ageing period. It is of empirical knowledge that the style is greatly affected by the oxidation regimens, i.e. bottle versus barrel storage