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.

Download the abstract

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…

Critical investigation on additions to improve the sensory characteristics of dealcoholized wine

The demand for dealcoholized wine has been progressively increasing in recent years. Moreover, the attention for such products is probably increasing even more. Due to that increasing demand and market awareness the legal authorities are about changing rules for that products. Also, at OIV level, these products are being intensively discussed for certain time. The production of dealcoholized wine bases on wine as initial product. This wine is then reduced by physical methods to an alcohol content of less than 0.5% vol., or in other words, to less than 4g/l of alcohol. There are various technologies are possible for producing dealcoholized wine (Schmitt and Christmann 2019).

Read More

Using nanopore skim-sequencing to characterise regional epigenetic variability in New Zealand Sauvignon Blanc

Recent advancements in genomic sequencing technologies have enabled more detailed and direct studies of DNA methylation, which can help characterise epigenetic variations in plants. The Grapevine Improvement team at the Bragato Research Institute is studying the use of Oxford Nanopore sequencing to identify epigenetic changes associated with environmental differences among clonally-propagated grapevines.

This study involved sequencing DNA from the same Sauvignon Blanc clone, sourced from diverse New Zealand viticultural regions, using the PromethION platform.

Read More

Interacción mesoclima-suelo en la calidad del vino de Cabernet-Sauvignon en las denominaciones de origen Priorato y Tarragona

Las condiciones heliotérmicas en España son en general favorables a alcanzar una elevada producción de azúcares en las bayas de prácticamente todas las variedades que se cultivan en nuestro país.

Read More

Reducing chemical use in vineyards. Evidence from the analysis of a national demonstration Network

High quantities of chemicals are applied in the vineyard for pest and disease control. Transition towards low pesticide viticulture is a key issue to improve sustainability. Winegrowers have to gradually change their practices to engage in this transition. This work aims at analysing the pesticide use evolution during transition towards low pesticide vineyards and identify some management options mobilized by winegrowers. To understand the diversity of pathways taken towards agroecological transition, we characterized different types of pesticide use evolution.

Read More

MicrobiomeSupport: Towards coordinated microbiome R&I activities in the food system to support (EU and) international bioeconomy goals

Microbiomes have crucial roles in maintaining life on Earth, and their functions drive human, animal, plant and environmental health. The microbiome research landscape is developing rapidly and is performed in many different science fields using similar concepts but mostly one (eco)system at-a-time. Thus, we are only starting to unravel and understand the interconnectedness of microbiomes across the (eco)systems.

Read More