terclim by ICS banner
IVES 9 IVES Conference Series 9 Exploring high throughput secondary trait phenomics to improve grapevine breeding

Exploring high throughput secondary trait phenomics to improve grapevine breeding

Abstract

Modern grapevine breeding programs have overcome many challenges using genomic selection, which has allowed breeders to make targeted selections at earlier stages in the breeding process. However, the cost of genetic testing may present a burden for some programs, and markers often struggle to accurately predict quantitative traits. Recent advances in high throughput, high-dimensional data have provoked investigation into the use of high-dimensional phenomics as a low-cost addition to the grape breeder’s toolkit that may offer advantages in predicting quantitative traits. High-dimensional secondary trait (HDST) data has been employed in annual crops for prediction of agriculturally important traits such as yield. To explore the potential of HDST data in grapes, 1618 grapevine seeds and seedlings from six populations were evaluated using hyperspectral and high-dimensional HSV color data.  We show that HDST data are variable within seed populations. To start, we explore correlations of HDST data with early life stage traits, demonstrating potential to develop predictive models. Our work utilizes low-cost, high throughput data which has the potential to supplement genomic selection, allowing breeders to make decisions at the earliest stage in the breeding cycle. This work lays a foundation for the use of HDST data from seeds to predict traits in grapevine.

DOI:

Publication date: June 14, 2024

Issue: Open GPB 2024

Type: Poster

Authors

Danielle Hopkins1*, Matthew Rubin2, Allison Miller1,2

1 Department of Biology, Saint Louis University, St. Louis, MO
2 Donald Danforth Plant Science Center, St. Louis, MO

Contact the author*

Keywords

phenomic selection, high throughput phenotyping, high-dimensional data

Tags

IVES Conference Series | Open GPB | Open GPB 2024

Citation

Related articles…

Il Cabernet di Atina dal 1850 al giorni nostri: un esempio di valorizzazione del territorio

In the province of Frosinone from 1850 they are cultivated in some zones wine grape of French origin like Merlot, Cabernet franc Cabernet sauvignon, Sirah, Pinot noir. The insertion of these varieties was the work of Pasquale Visocchi in the great company of family “Fratelli Visocchi Proprietari” (F. V.P.).

Caratterizzazione vitivinicola delle “Terre del Piacenziano” ricomprese nella zona D.O.C. “colli piacentini” attraverso l’analisi sensoriale dei vini prodotti

I territori della Riserva Geologica del Piacenziano sono parte del pedeappennino piacentino e sono noti per essere la culla del Pliocene, quel periodo di storia della Terra compreso tra 5.3 e 1.8 milioni di anni fa. Gli strati argillosi e sabbiosi riccamente fossiliferi qui presenti sono da sempre oggetto di studi geo-paleontologici tant’è che il Pliocene medio (3.6-2.6 milioni di anni fa) è internazionalmente noto come Piacenziano. Le analisi sensoriali strutturate dei vini qui prodotti hanno evidenziato, soprattutto per il vino Monterosso, le positive peculiarità dei loro caratteri sensoriali e descritto gli scostamenti significativi del loro profilo sensoriale rispetto agli altri vini presi a riferimento.

Impact of soil-applied and foliar-applied nitrogen on grape and wine composition

Foliar application of urea may be an efficient way to alter grape and wine composition without increasing vine vigor. However, we know little about the impact of this practice on phenolic compounds and yeast assimilable nitrogen (YAN). Adequate YAN is required for an efficient and complete fermentation, while phenolics are particularly important for the sensory profile of red wines. The goal of this study is to test the impact of foliar urea application at veraison, compared to the traditional soil-applied nitrogen fertilization early in the season, on Syrah berry and wine composition in field conditions.

Drought affects vineyard soil microbiome: approach to select micro-organisms adapted to drought

Climate transition with frequent heat waves and long drought periods threatens grapevine productivity and wine quality in the Mediterranean regions. Microorganisms are known to contribute to plant fitness and to stimulate plant resilience against biotic and abiotic factors.
In this work, it was assessed the impact of long-term drought on soil microbiome associated to grapevine in open field in Alentejo, renowned Portuguese wine region.
Soil and plant tissues of drought tolerant Syrah cultivar exposed to three irrigation levels (100%- FI, 50%-DI ETc; rain-fed–NI) for 5 years were sampled for two years (2022-2023). Metabarcoding analysis of soil bacteria (16S V4 rRNA) and fungi (ITS sub-region) were integrated with soil physiochemical properties and leaves´ physiological data. Pre-dawn leaf water potential and stomatal conductance confirmed the imposed drought scenarios. Even though, α- and β-diversity of prokaryotic and eukaryotic microbial communities differed more by season than water availability, samples clustered according to soil water content and pH (p<0.05). Fungal communities show higher differences in the structure across treatments than bacteria. In 2023, 16 bacterial against 61 fungal ASVs were significatively different in abundance between NI and FI. Beijerinckiaceae, Bradyrhizobiaceae (Alphaproteobacteria) and Nocardioidaceae, Streptomycetaceae (Actinobacteria) families resulted to be significatively more abundant in NI, while Ascomycota, Basidyomicota and Mortierellomycota are the most important fungal phyla in NI. With culturomics data, this study aims to gather insights into how soil microbiome is remodelled under drought and contribute to select bacterial and fungal taxa with potential to mitigate drought stress in vineyards.

Comparing vineyard irrigation management based in two different approaches: vegetation indices and SIMDualKc model

Water scarcity, high air temperatures, high vapor pressure deficit, and increasing frequency and intensity of extreme climatic events, namely heat waves, exert huge pressure on viticulture, as is the case of Mediterranean climates. Therefore, farmers rely more and more on irrigation to overcome these constraints. Deficit irrigation is a proved strategy to optimize irrigation efficiency and wine quality. The present study intends to demonstrate the application of precision techniques, namely remote sensing derived vegetation indices (VI) and an open source software, SIMDualKc, to compute crop evapotranspiration using the dual crop coefficient approach (Kcb + Ke), for deficit irrigation management.